chromosome 9
{{short description|Human chromosome}}
{{Infobox chromosome
| image = Human male karyotpe high resolution - Chromosome 9 cropped.png
| caption = Human chromosome 9 pair after G-banding:
One is from the mother, one is from the father.
| image2 = Human male karyotpe high resolution - Chromosome 9.png
| caption2 = Chromosome 9 pair
in human male karyogram
| length_bp = 150,617,247 bp
(CHM13)
| genes = 739 (CCDS)
| type = Autosome
| centromere_position = Submetacentric{{cite book|author1=Tom Strachan|author2=Andrew Read|title=Human Molecular Genetics|url=https://books.google.com/books?id=dSwWBAAAQBAJ&pg=PA45|date=2 April 2010|publisher=Garland Science|isbn=978-1-136-84407-2|page=45}}
(43.0 MbpGenome Decoration Page, NCBI. [http://ftp.ncbi.nlm.nih.gov/pub/gdp/ideogram_9606_GCF_000001305.14_850_V1 Ideogram data for Homo sapience (850 bphs, Assembly GRCh38.p3)]. Last update 2014-06-03. Retrieved 2017-04-26.)
| chr = 9
| ensembl_id = 9
| entrez_id = 9
| ncbi_id = 9
| ucsc_id = 9
| refseq_id = NC_000009
| genbank_id = CM000671
}}
Chromosome 9 is one of the 23 pairs of chromosomes in humans. Humans normally have two copies of this chromosome, as they normally do with all chromosomes. Chromosome 9 spans about 138 million base pairs of nucleic acids (the building blocks of DNA) and represents between 4.0 and 4.5% of the total DNA in cells.
Genes
=Number of genes=
These are some of the gene count estimates of human chromosome 9. Because researchers use different approaches to genome annotation, their predictions of the number of genes on each chromosome varies (for technical details, see gene prediction). Among various projects, the collaborative consensus coding sequence project (CCDS) takes an extremely conservative strategy. So CCDS's gene number prediction represents a lower bound on the total number of human protein-coding genes.{{cite journal| author=Pertea M, Salzberg SL| title=Between a chicken and a grape: estimating the number of human genes. | journal=Genome Biol | year= 2010 | volume= 11 | issue= 5 | pages= 206 | pmid=20441615 | doi=10.1186/gb-2010-11-5-206 | pmc=2898077 | doi-access=free }}
=Gene list=
{{Category see also|Genes on human chromosome 9}}
The following is a partial list of genes on human chromosome 9. For a complete list, see the link in the infobox on the right.
File:Ics-codablock-blood-bag sample.jpg, which determines ABO blood type, is located on the long arm of this chromosome. (Location: 9q34.2)]]
{{columns-list|
- ABO: ABO histo-blood group glycosyltransferases
- ACTL7A: encoding protein Actin-like protein 7A
- ADAMTS13: ADAM metallopeptidase with thrombospondin type 1 motif, 13
- AIF1L: allograft inflammatory factor 1-like
- ALAD: aminolevulinate, delta-, dehydratase
- ALS4: amyotrophic lateral sclerosis 4
- ANGPTL2: angiopoietin-related protein 2
- ASS: argininosuccinate synthetase
- BANCR: encoding protein BRAF-activated non-protein coding RNA
- BNC2: zinc finger protein basonuclin-2
- C9orf64: chromosome 9 open reading frame 64
- C9orf78: encoding protein Uncharacterized protein C9orf78
- SHOC1: Shortage In Chiasmata 1
- C9orf25: encoding protein Chromosome 9 open reading frame 25
- C9orf43: encoding protein Chromosome 9 open reading frame 43
- C9orf135: encoding protein Chromosome 9 open reading frame 135
- C9orf152: chromosome 9 open reading frame 152
- C9orf156: encoding protein Chromosome 9 open reading frame 156
- CAAP1: caspase activity and apoptosis inhibitor 1
- CARD19: caspase recruitment domain family member 19
- CBWD1: COBW domain-containing protein 1
- CCDC180: Coiled coil domain-containing protein 180
- CCL21: chemokine (C-C motif) ligand 21, SCYA21
- CCL27: chemokine (C-C motif) ligand 27, SCYA27
- CFAP157: Cilia and flagella associated protein 157
- CHMP5: Charged multivesicular body protein 5
- CNTLN: centlein
- CDKN2BAS: CDKN2B antisense RNA 1 or antisense non-coding RNA in the INK4 locus (ANRIL)
- COL5A1: collagen, type V, alpha 1
- DDX31: DEAD box polypeptide 31
- DENND1A: DENN domain-containing protein 1A
- ENG: endoglin (Osler-Rendu-Weber syndrome 1)
- ENTPD2: encoding enzyme ectonucleoside triphosphate diphosphohydrolase 2
- EQTN: equatorin
- FAM73B: family with sequence similarity 73 member B
- FAM120A: Family with sequence similarity 120 member A
- FAM122a: encoding protein Family with sequence similarity 122A
- FBP1 Fructose-1,6-bisphosphatase 1
- FIBCD1: encoding protein Fibrinogen C domain containing 1
- FOCAD: focadhesin
- FXN: frataxin
- GALT: galactose-1-phosphate uridylyltransferase
- GAS1: growth arrest-specific protein 1
- GCNT1: glucosaminyl (N-acetyl) transferase 1
- GLE1L: Nucleoporin GLE1
- GPR107: G protein-coupled receptor 107
- GRHPR: glyoxylate redasductase/hydroxypyruvate reductase
- GSN: cytoplasmic and plasma gelsolin
- HAUS6: HAUS augmin-like complex subunit 6
- HEMGN: encoding protein hemogen
- IFN1@: Interferon, type 1, cluster
- IKBKAP: inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase complex-associated protein
- INSL6: insulin like 6
- ISCA1: iron-sulfur cluster assembly 1 homolog, mitochondrial
- KIAA1958: protein KIAA1958
- KYAT1: Kynurenine aminotransferase 1
- LINGO2: leucine rich repeat and Ig domain containing 2
- LOC101928193: encoding protein LOC101928193
- MGC50722: Protein MGC50722, Uncharacterized Protein LOC399693
- MIR181A2HG encoding protein MIR181A2 host gene
- MIR7-1: microRNA 7-1
- MSMP: encoding protein Microseminoprotein, prostate associated
- MTAP: S-methyl-5'-thioadenosine phosphorylase
- NAA35: encoding protein N(alpha)-acetyltransferase 35, NatC auxiliary subunit
- NANS: N-acetylneuraminate synthase
- NINJ1: ninjurin-1
- NOL6: nucleolar protein 6
- NUDT2: nudix hydrolase 2
- OBP2B: encoding protein Odorant-binding protein 2B
- OLFM1: olfactomedin 1
- PHF2: PHD finger protein 2
- PHPT1: phosphohistidine phosphatase 1
- PIP5K1B: phosphatidylinositol-4-phosphate 5-kinase type-1 beta
- PLAA: phospholipase A-2-activating protein
- PMPCA: mitochondrial processing alpha subunit
- PRUNE2: protein prune homolog 2
- PTCH1: protein patched 1 transmembrane receptor protein
- RABGAP1: RAB GTPase activating protein 1
- REXO4: RNA exonuclease 4
- RNF183: encoding protein Ring finger protein 183
- SARDH: sarcosine dehydrogenase, mitochondrial
- SIT1: signaling threshold regulating transmembrane adapter 1
- SLC25A25-AS1: encoding protein SLC25A25 antisense RNA 1
- SNORD24: encoding protein small nucleolar RNA, C/D box 24
- SPAG8 sperm-associated antigen 8
- SPIN1: spindlin-1
- ST6GALNAC4 encoding enzyme ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4, also known as sialyltransferase 3C (SIAT3-C) or sialyltransferase 7D (SIAT7-D)
- ST6GALNAC6: ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 6
- STOML2: stomatin-like protein 2
- STRBP: spermatid perinuclear RNA-binding protein
- TEX10: testis expressed 10
- TGFBR1: transforming growth factor beta, receptor type I
- TMC1: transmembrane channel-like 1
- TMEM215: encoding protein Transmembrane protein 215
- TMEM268: Transmembrane protein 268
- TOR2A encoding protein Torsin-2A
- TSC1: tuberous sclerosis complex 1
- TTC39B: tetratricopeptide repeat protein 39B
- UBAC1: ubiquitin-associated domain containing protein 1
- UBAP1: ubiquitin-associated protein 1
- UBAP2: ubiquitin-associated protein 2
- ZBTB43: zinc finger and BTB domain containing 43
- ZCCHC6: zinc finger, CCHC domain containing 6
- ZDHHC21: zinc finger DHHC-type containing 21
- ZNF79: zinc finger protein 79
- ZNF367: encoding protein Zinc finger protein 367
- ZNF510: zinc finger protein 510
}}
Diseases and disorders
The following diseases are some of those related to genes on chromosome 9:
{{div col|colwidth=22em}}
- Coronary artery disease
- chronic myelogenous leukemia (t9;22 - the Philadelphia chromosome)
- Diaphyseal Medullary Stenosis with Malignant Fibrous Histiosytoma (DMS-MFH, Hardcastle syndrome)
- Ehlers-Danlos syndrome
- familial dysautonomia
- Friedreich ataxia
- Frontotemporal dementia
- galactosemia
- Gorlin syndrome or nevoid basal cell carcinoma syndrome
- hereditary hemorrhagic telangiectasia
- lethal congenital contracture syndrome
- nail-patella syndrome (NPS)
- nonsyndromic deafness
- OCD
- polycythemia vera
- porphyria
- primary hyperoxaluria
- STXBP1
- Tangier disease
- tetrasomy 9p
- thrombotic thrombocytopenic purpura
- trisomy 9
- tuberous sclerosis
- VLDLR-associated cerebellar hypoplasia
{{div col end}}
Cytogenetic band
{{multiple image
| header = G-banding ideograms of human chromosome 9
| total_width = 400
| image1 = Human chromosome 9 ideogram vertical.svg
| width1 = 216
| height1= 1125
| caption1 = G-banding ideogram of human chromosome 9 in resolution 850 bphs. Band length in this diagram is proportional to base-pair length. This type of ideogram is generally used in genome browsers (e.g. Ensembl, UCSC Genome Browser).
| image2 = Human chromosome 09 - 400 550 850 bphs.png
| width2 = 1003
| height2= 2801
| caption2 = G-banding patterns of human chromosome 9 in three different resolutions (400,Genome Decoration Page, NCBI. [http://ftp.ncbi.nlm.nih.gov/pub/gdp/ideogram_9606_GCF_000001305.14_400_V1 Ideogram data for Homo sapience (400 bphs, Assembly GRCh38.p3)]. Last update 2014-03-04. Retrieved 2017-04-26. 550Genome Decoration Page, NCBI. [http://ftp.ncbi.nlm.nih.gov/pub/gdp/ideogram_9606_GCF_000001305.14_550_V1 Ideogram data for Homo sapience (550 bphs, Assembly GRCh38.p3)]. Last update 2015-08-11. Retrieved 2017-04-26. and 850Genome Decoration Page, NCBI. [http://ftp.ncbi.nlm.nih.gov/pub/gdp/ideogram_9606_GCF_000001305.14_850_V1 Ideogram data for Homo sapience (850 bphs, Assembly GRCh38.p3)]. Last update 2014-06-03. Retrieved 2017-04-26.). Band length in this diagram is based on the ideograms from ISCN (2013).{{cite book|author=International Standing Committee on Human Cytogenetic Nomenclature|title=ISCN 2013: An International System for Human Cytogenetic Nomenclature (2013)|url=https://books.google.com/books?id=lGCLrh0DIwEC|year=2013|publisher=Karger Medical and Scientific Publishers|isbn=978-3-318-02253-7}} This type of ideogram represents actual relative band length observed under a microscope at the different moments during the mitotic process.{{Cite book|last1=Sethakulvichai|first1=W.|last2=Manitpornsut|first2=S.|last3=Wiboonrat|first3=M.|last4=Lilakiatsakun|first4=W.|last5=Assawamakin|first5=A.|last6=Tongsima|first6=S.|title=2012 Ninth International Conference on Computer Science and Software Engineering (JCSSE) |chapter=Estimation of band level resolutions of human chromosome images |year=2012|pages=276–282|doi=10.1109/JCSSE.2012.6261965|url=https://www.researchgate.net/publication/261304470|isbn=978-1-4673-1921-8|s2cid=16666470}}
}}
class="wikitable" style="text-align:right"
|+ G-bands of human chromosome 9 in resolution 850 bphsGenome Decoration Page, NCBI. [http://ftp.ncbi.nlm.nih.gov/pub/gdp/ideogram_9606_GCF_000001305.14_850_V1 Ideogram data for Homo sapience (850 bphs, Assembly GRCh38.p3)]. Last update 2014-06-03. Retrieved 2017-04-26. ! Chr. ! Arm"p": Short arm; "q": Long arm. ! BandFor cytogenetic banding nomenclature, see article locus. ! ISCN ! Basepair ! Basepair ! Staingpos: Region which is positively stained by G banding, generally AT-rich and gene poor; gneg: Region which is negatively stained by G banding, generally CG-rich and gene rich; acen Centromere. var: Variable region; stalk: Stalk. ! Density | ||||||
9 | p
|style="text-align:left"| 24.3 | 0 | 127 | {{val|1|fmt=commas}} | {{val|2200000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 24.2 | 127 | 268 | {{val|2200001|fmt=commas}} | {{val|4600000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | p
|style="text-align:left"| 24.1 | 268 | 451 | {{val|4600001|fmt=commas}} | {{val|9000000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 23 | 451 | 677 | {{val|9000001|fmt=commas}} | {{val|14200000|fmt=commas}}
|style="background:#636363; color:white;"| gpos | 75 |
9 | p
|style="text-align:left"| 22.3 | 677 | 846 | {{val|14200001|fmt=commas}} | {{val|16600000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 22.2 | 846 | 987 | {{val|16600001|fmt=commas}} | {{val|18500000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | p
|style="text-align:left"| 22.1 | 987 | 1085 | {{val|18500001|fmt=commas}} | {{val|19900000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 21.3 | 1085 | 1297 | {{val|19900001|fmt=commas}} | {{val|25600000|fmt=commas}}
|style="background:black; color:white;"| gpos | 100 |
9 | p
|style="text-align:left"| 21.2 | 1297 | 1395 | {{val|25600001|fmt=commas}} | {{val|28000000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 21.1 | 1395 | 1621 | {{val|28000001|fmt=commas}} | {{val|33200000|fmt=commas}}
|style="background:black; color:white;"| gpos | 100 |
9 | p
|style="text-align:left"| 13.3 | 1621 | 1917 | {{val|33200001|fmt=commas}} | {{val|36300000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 13.2 | 1917 | 2030 | {{val|36300001|fmt=commas}} | {{val|37900000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | p
|style="text-align:left"| 13.1 | 2030 | 2171 | {{val|37900001|fmt=commas}} | {{val|39000000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 12 | 2171 | 2312 | {{val|39000001|fmt=commas}} | {{val|40000000|fmt=commas}}
|style="background:#979797"| gpos | 50 |
9 | p
|style="text-align:left"| 11.2 | 2312 | 2523 | {{val|40000001|fmt=commas}} | {{val|42200000|fmt=commas}}
| style="background:white"| gneg | |
9 | p
|style="text-align:left"| 11.1 | 2523 | 2650 | {{val|42200001|fmt=commas}} | {{val|43000000|fmt=commas}}
|style="background:#6e7f8f; color:white;"| acen | |
9 | q
|style="text-align:left"| 11 | 2650 | 2876 | {{val|43000001|fmt=commas}} | {{val|45500000|fmt=commas}}
|style="background:#6e7f8f; color:white;"| acen | |
9 | q
|style="text-align:left"| 12 | 2876 | 3468 | {{val|45500001|fmt=commas}} | {{val|61500000|fmt=commas}}
|style="background:#e0e0e0"| gvar | |
9 | q
|style="text-align:left"| 13 | 3468 | 3609 | {{val|61500001|fmt=commas}} | {{val|65000000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 21.11 | 3609 | 3792 | {{val|65000001|fmt=commas}} | {{val|69300000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 21.12 | 3792 | 3876 | {{val|69300001|fmt=commas}} | {{val|71300000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 21.13 | 3876 | 4060 | {{val|71300001|fmt=commas}} | {{val|76600000|fmt=commas}}
|style="background:#979797"| gpos | 50 |
9 | q
|style="text-align:left"| 21.2 | 4060 | 4229 | {{val|76600001|fmt=commas}} | {{val|78500000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 21.31 | 4229 | 4440 | {{val|78500001|fmt=commas}} | {{val|81500000|fmt=commas}}
|style="background:#979797"| gpos | 50 |
9 | q
|style="text-align:left"| 21.32 | 4440 | 4638 | {{val|81500001|fmt=commas}} | {{val|84300000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 21.33 | 4638 | 4835 | {{val|84300001|fmt=commas}} | {{val|87800000|fmt=commas}}
|style="background:#979797"| gpos | 50 |
9 | q
|style="text-align:left"| 22.1 | 4835 | 5074 | {{val|87800001|fmt=commas}} | {{val|89200000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 22.2 | 5074 | 5173 | {{val|89200001|fmt=commas}} | {{val|91200000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 22.31 | 5173 | 5314 | {{val|91200001|fmt=commas}} | {{val|93900000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 22.32 | 5314 | 5455 | {{val|93900001|fmt=commas}} | {{val|96500000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 22.33 | 5455 | 5638 | {{val|96500001|fmt=commas}} | {{val|99800000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 31.1 | 5638 | 5892 | {{val|99800001|fmt=commas}} | {{val|105400000|fmt=commas}}
|style="background:black; color:white;"| gpos | 100 |
9 | q
|style="text-align:left"| 31.2 | 5892 | 6005 | {{val|105400001|fmt=commas}} | {{val|108500000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 31.3 | 6005 | 6146 | {{val|108500001|fmt=commas}} | {{val|112100000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 32 | 6146 | 6456 | {{val|112100001|fmt=commas}} | {{val|114900000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 33.1 | 6456 | 6681 | {{val|114900001|fmt=commas}} | {{val|119800000|fmt=commas}}
|style="background:#636363; color:white;"| gpos | 75 |
9 | q
|style="text-align:left"| 33.2 | 6681 | 6822 | {{val|119800001|fmt=commas}} | {{val|123100000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 33.3 | 6822 | 6949 | {{val|123100001|fmt=commas}} | {{val|127500000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 34.11 | 6949 | 7217 | {{val|127500001|fmt=commas}} | {{val|130600000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 34.12 | 7217 | 7302 | {{val|130600001|fmt=commas}} | {{val|131100000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 34.13 | 7302 | 7443 | {{val|131100001|fmt=commas}} | {{val|133100000|fmt=commas}}
| style="background:white"| gneg | |
9 | q
|style="text-align:left"| 34.2 | 7443 | 7555 | {{val|133100001|fmt=commas}} | {{val|134500000|fmt=commas}}
|style="background:#d9d9d9"| gpos | 25 |
9 | q
|style="text-align:left"| 34.3 | 7555 | 7950 | {{val|134500001|fmt=commas}} | {{val|138394717|fmt=commas}}
| style="background:white"| gneg |
References
{{Reflist}}
{{refbegin|2|refs=}}
- {{cite journal |vauthors=Gilbert F, Kauff N | title=Disease genes and chromosomes: disease maps of the human genome. Chromosome 9 | journal=Genet Test | year=2001 | pages=157–74 | volume=5 | issue=2 | pmid=11551106 | doi=10.1089/109065701753145664}}
- {{cite journal | author=Humphray SJ | title=DNA sequence and analysis of human chromosome 9 | journal=Nature | year=2004 | pages=369–74 | volume=429 | issue=6990 | pmid=15164053 | doi=10.1038/nature02465 | pmc=2734081 |name-list-style=vanc| author2=Oliver K | author3=Hunt AR | display-authors=3 | last4=Plumb | first4=R. W. | last5=Loveland | first5=J. E. | last6=Howe | first6=K. L. | last7=Andrews | first7=T. D. | last8=Searle | first8=S. | last9=Hunt | first9=S. E.| bibcode=2004Natur.429..369H }}
- {{cite journal |vauthors=Wicking C, Berkman J, Wainwright B | title=Fine genetic mapping of the gene for nevoid basal cell carcinoma syndrome. Chromosome 9 | journal=Genomics | year=1994 | pages=505–11 | volume=22 | issue=3 | pmid=8001963 | doi=10.1006/geno.1994.1423}}
- {{cite journal |vauthors=Mäkelä-Bengs P, Järvinen N, Vuopala K, Suomalainen A, Palotie A, Peltonen L | title = The assignment the lethal congenital contracture syndrome (LCCS) locus to chromosome 9q33-34 | journal = Am. J. Hum. Genet. | volume = 61 | issue = suppl | pages = A30 | year = 1997 }}
{{refend}}
External links
{{Commons category|Human chromosome 9}}
- {{cite web | author= National Institutes of Health | title= Chromosome 9 | work= Genetics Home Reference | url= http://ghr.nlm.nih.gov/chromosome=9 | access-date= 2017-05-06 | archive-date= 2007-06-30 | archive-url= https://web.archive.org/web/20070630182713/http://ghr.nlm.nih.gov/chromosome=9 | url-status= dead }}
- {{Cite web|url=http://web.ornl.gov/sci/techresources/Human_Genome/posters/chromosome/chromo09.shtml|title=Chromosome 9|website=Human Genome Project Information Archive 1990–2003|access-date=2017-05-06}}
{{Chromosomes}}
{{Chromosome genetics}}
{{DEFAULTSORT:Chromosome 09 (Human)}}