Chromosome 17

Chromosome 17
Human chromosome 17 pair after G-banding.
One is from mother, one is from father.
Chromosome 17 pair
in human male karyogram.
Features
Length (bp)84,276,897 bp
(CHM13)
No. of genes1,124 (CCDS)[1]
TypeAutosome
Centromere positionSubmetacentric[2]
(25.1 Mbp[3])
Complete gene lists
CCDSGene list
HGNCGene list
UniProtGene list
NCBIGene list
External map viewers
EnsemblChromosome 17
EntrezChromosome 17
NCBIChromosome 17
UCSCChromosome 17
Full DNA sequences
RefSeqNC_000017 (FASTA)
GenBankCM000679 (FASTA)

Chromosome 17 is one of the 23 pairs of chromosomes in humans. People normally have two copies of this chromosome. Chromosome 17 spans more than 84 million base pairs (the building material of DNA) and represents between 2.5 and 3% of the total DNA in cells.

Chromosome 17 contains the Homeobox B gene cluster.

Genes

Number of genes

The following are some of the gene count estimates of human chromosome 17. 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). The most conservative estimate, from CCDS, represents a lower bound on the total number of human protein-coding genes.[4]

Estimated by Protein-coding genes Non-coding RNA genes Pseudogenes Source Release date
CCDS 1,124 — — [1] 2016-09-08
HGNC 1,137 404 495 [5] 2024-10-04
Ensembl 1,184 1,199 535 [6] 2017-03-29
UniProt 1,174 — — [7] 2024-10-02
NCBI 1,199 757 566 [8][9][10] 2017-05-19

Gene list

See also: Category:Genes on human chromosome 17

The following is a partial list of genes on human chromosome 17. For complete list, see the link in the infobox on the right.

  • ABI3: encoding protein ABI gene family member 3
  • ABR: encoding protein Abr, rhogef and gtpase activating protein
  • ARHGAP44: encoding protein Rho GTPase activating protein 44
  • AZI1: encoding protein 5-azacytidine-induced protein 1
  • BRCA1P1: BRCA1 pseudogene 1
  • C17orf67: encoding protein Chromosome 17 open reading frame 67
  • C1QL1: encoding protein complement component 1, q subcomponent-like 1
  • CCDC144A: encoding protein Coiled-coil domain-containing protein 144A
  • CCDC40: encoding protein Coiled-coil domain containing 40
  • CCDC47: encoding protein PAT complex subunit CCDC47
  • CCDC57: encoding protein Coiled-coil domain-containing protein 57
  • CCL3L3: encoding protein C-C motif chemokine ligand 3 like 3
  • CLUH: encoding protein Clustered mitochondria (cluA/CLU1) homolog
  • CTAA2: encoding protein Cataract, anterior polar 2
  • CTDNEP1: encoding protein CTD nuclear envelope phosphatase 1
  • CUEDC1: encoding protein Cue domain containing 1
  • DHX8: encoding protein DEAH-box helicase 8
  • DPH1 encoding protein Diphthamide biosynthesis protein 1
  • DRC3 encoding protein Dynein regulatory complex subunit 3
  • FAM106A: encoding protein Family with sequence similarity 106 member A
  • FAM20A: encoding protein FAM20A
  • GAS7: encoding protein Growth arrest-specific protein 7
  • GGT6: encoding protein Gamma-glutamyltransferase 6
  • HIGD1B: encoding protein HIG1 hypoxia inducible domain family member 1B
  • INCA1: encoding protein Inhibitor of cdk, cyclin a1 interacting protein 1
  • JPT1: encoding protein Jupiter microtubule associated homolog 1
  • KRTAP locus: encoding ca. 40 Keratin-associated proteins
  • LINC00511: producing Long intergenic non-protein coding RNA 511
  • LINC00674: producing Long intergenic non-protein coding RNA 674
  • LINC00483: encoding protein Long intergenic non-protein coding rna 483
  • LRRC37A encoding protein Leucine rich repeat containing 37A
  • MAPT-AS1: encoding noncoding RNA MAPT antisense RNA 1
  • MBTD1: encoding protein Malignant Brain Tumor domain containing 1
  • METTL16: encoding protein Methyltransferase like 16
  • MGAT5B: encoding enzyme Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B
  • MIR1250: encoding protein MicroRNA 1250
  • MIR195: producing MicroRNA 195
  • MIR4521: producing MicroRNA 4521
  • MIR4727: producing MicroRNA 4727
  • MLLT6: encoding protein MLLT6, PHD finger containing
  • MRM3: encoding enzyme rRNA methyltransferase 3, mitochondrial
  • MSI2: encoding protein Musashi RNA binding protein 2
  • MTRNR2L1: encoding protein Mt-rnr2-like 1
  • MYBBP1A: encoding protein Myb-binding protein 1A
  • MYCBPAP: encoding protein MYCBP associated protein
  • NBP: encoding peptide Neuropeptide B
  • NME1-NME2:
  • NXPH3: encoding protein Neurexophilin-3
  • OMG: encoding protein Oligodendrocyte-myelin glycoprotein
  • Ormdl sphingolipid biosynthesis regulator 3: encoding protein ORMDL sphingolipid biosynthesis regulator 3
  • PLXDC1: encoding protein Plexin domain-containing protein 1
  • PNPO: encoding enzyme Pyridoxine-5'-phosphate oxidase
  • PPP1R27: encoding protein Protein phosphatase 1, regulatory subunit 27
  • PRAL: encoding protein P53 regulation associated lncRNA
  • PRCD: encoding protein Progressive rod-cone degeneration
  • PRPSAP2: encoding protein Phosphoribosyl pyrophosphate synthetase-associated protein 2
  • PRR11: encoding protein Proline rich 11
  • PRR29: encoding protein Proline-rich protein 29
  • QRICH2: encoding protein Glutamine-rich protein 2
  • RAP1GAP2: encoding protein RAP1 GTPase activating protein 2
  • RETREG3: encoding protein Reticulophagy regulator 3
  • RFFL: encoding enzyme E3 ubiquitin-protein ligase rififylin
  • RPAIN: encoding protein RPA-interacting protein
  • SC65: encoding protein Synaptonemal complex protein SC65
  • SCIMP: encoding protein Slp adaptor and csk interacting membrane protein
  • SCPEP1: encoding enzyme Retinoid-inducible serine carboxypeptidase
  • SEBOX: encoding protein SEBOX homeobox
  • SECTM1: encoding protein Secreted and transmembrane protein 1
  • SEPTIN4: encoding Septin4
  • SKA2: encoding protein Spindle and Kinetochore Associated
  • SLC39A11: encoding protein Solute carrier family 39 member 11
  • SLFN13 : encoding protein Schlafen family member 13
  • SNF8: encoding protein Vacuolar-sorting protein SNF8
  • SPACA3: Sperm acrosome membrane-associated protein 3
  • SPAG5: encoding protein Sperm-associated antigen 5
  • SPMAP1: encoding protein Sperm microtubule associated protein 1
  • ST6GALNAC1: encoding enzyme Alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 1
  • ST6GALNAC2: encoding enzyme Alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 2
  • STH: encoding protein Saitohin
  • TAC4: encoding protein Tachykinin-4
  • TBC1D3: encoding protein TBC1 domain family member 3E/3F
  • TMEM106A: encoding protein Transmembrane protein 106A
  • TMEM94: encoding protein Transmembrane protein 94
  • TMEM98: encoding protein Transmembrane protein 98
  • TNFSF12-TNFSF13:
  • TOM1L1: encoding protein TOM1-like protein 1
  • TOM1L2: encoding protein TOM1-like protein 2
  • TRIM65: encoding protein Tripartite motif containing 65
  • TRPV1: encoding protein Transient receptor potential cation channel subfamily V member 1
  • TSEN54: encoding protein TRNA splicing endonuclease subunit 54
  • TTYH2: encoding protein Tweety family member 2
  • VAT1: encoding protein Synaptic vesicle membrane protein VAT-1 homolog
  • VCF1: encoding protein VCF1
  • VEZF1: encoding protein Vascular endothelial zinc finger 1
  • VPS25: encoding protein Vacuolar protein-sorting-associated protein 25
  • VPS53: encoding protein Vacuolar protein sorting 53 homolog (S. cerevisiae)
  • WFDC21P: encoding protein WAP four-disulfide core domain 21, pseudogene
  • YBX2: encoding protein Y-box-binding protein 2
  • ZNF207: encoding protein Zinc finger protein 207
  • ZNF830: encoding protein Zinc finger protein 830

Groups of similar genes:

The following are some of the genes and their corresponding Cytogenetic location on chromosome 17:

p-arm

  • FLCN: folliculin (17p11.2)
  • MYO15A: myosin XVA (17p11.2)
  • RAI1: retinoic acid induced 1 (17p11.2)
  • PMP22: peripheral myelin protein 22 (17p12)
  • CTNS: cystinosin, the lysosomal cystine transporter (17p13)
  • USP6: Ubiquitin carboxyl-terminal hydrolase 6 linked to Aneurysmal bone cyst (17p13)
  • ACADVL: acyl-coenzyme A dehydrogenase, very long chain (17p13.1)
  • SHBG: Sex hormone binding globulin (17p13.1)
  • TP53: tumor suppressor protein p53 (Li-Fraumeni syndrome), tumor suppressor gene (17p13.1)
  • ASPA: aspartoacylase (Canavan disease) (17p13.3)
  • GLOD4: glyoxalase domain containing 4 (17p13.3)

q-arm

  • NSRP1: Coiled-coil domain-containing protein 55 (17q11.2)
  • FLOT2: flotillin 2 (17q11.2)
  • NF1: neurofibromin 1 (neurofibromatosis, von Recklinghausen disease, Watson disease) (17q11.2)
  • SLC6A4: Serotonin transporter linked to Obsessive Compulsive Disorder (OCD) [11] (17q11.2)
  • CCL4L1: C-C motif chemokine ligand 4 like 1 (17q12)
  • DDX52: DExD-box helicase 52 (17q12)
  • ERBB2 loca leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian) (17q12)
  • GRB7: Growth factor Receptor-Bound protein 7 (17q12)
  • BRCA1: breast cancer 1, early onset (17q21)
  • GFAP: glial fibrillary acidic protein (17q21)
  • RARA or RAR-alpha: Retinoic acid receptor Alpha (involved in t(15,17) with PML) (17q21)
  • Type I keratin cluster (17q21.2)
  • NAGLU: N-acetyl glucosaminidase, Sanfilippo B syndrome (17q21.2)
  • SLC4A1: Band 3 anion transporter protein. Solute carrier family 4, member 1 (17q21.31)
  • MAPT gene coding for encoding tau protein (17q21.31)
  • CBX1: chromobox homolog 1 (17q21.32)
  • HOXB cluster (17q21.32)
  • COL1A1: collagen, type I, alpha 1 (17q21.33)
  • LUC7L3: LUC7 like 3 pre-mRNA splicing factor (17q21.33)
  • NOG: Noggin protein (17q22)
  • RPS6KB1 or S6K: Ribosomal protein S6-kinase (17q23.1)
  • FTSJ3: FtsJ homolog 3 (17q23.3)
  • SCN4A: Voltage-Gated Sodium Channel Subunit Alpha Nav1.4 (17q23.3)
  • GALK1: galactokinase 1 (17q24)
  • KCNJ2: potassium inwardly-rectifying channel, subfamily J, member 2 (17q24.3)
  • ACTG1: actin, gamma 1 (17q25)
  • CDC42EP4: CDC42 effector protein 4 (17q25.1)
  • USH1G: Usher syndrome 1G (autosomal recessive) (17q25.1)
  • CANT1: Calcium-activated nucleotidase 1 (17q25.3)
  • BIRC5: Survivin (17q25.3)
  • CHMP6: Charged multivesicular body protein 6 (17q25.3)
  • ENPP7: ectonucleotide pyrophosphatase/phosphodiesterase 7 (17q25.3)
  • RHBDF2: Rhomboid family member 2 (17q25.3)
  • TMC6 and TMC8: Transmembrane channel-like 6 and 8 (epidermodysplasia verruciformis) (17q25.3)

Diseases and disorders

Inactivating PH mutation in either the EVER1 or EVER2 genes, which are located adjacent to one another on chromosome 17 causes Epidermodysplasia verruciformis.

The following diseases are related to genes on chromosome 17:

Cytogenetic band

G-banding ideograms of human chromosome 17
G-banding ideogram of human chromosome 17 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).
G-banding patterns of human chromosome 17 in three different resolutions (400,[12] 550[13] and 850[3]). Band length in this diagram is based on the ideograms from ISCN (2013).[14] This type of ideogram represents actual relative band length observed under a microscope at the different moments during the mitotic process.[15]
G-bands of human chromosome 17 in resolution 850 bphs[16]
Chr. Arm[17] Band[18] ISCN
start[19] 		ISCN
stop[19] 		Basepair
start 		Basepair
stop 		Stain[20] Density
17 p 13.3 0 385 1 3,400,000 gneg
17 p 13.2 385 550 3,400,001 6,500,000 gpos 50
17 p 13.1 550 784 6,500,001 10,800,000 gneg
17 p 12 784 990 10,800,001 16,100,000 gpos 75
17 p 11.2 990 1499 16,100,001 22,700,000 gneg
17 p 11.1 1499 1664 22,700,001 25,100,000 acen
17 q 11.1 1664 1815 25,100,001 27,400,000 acen
17 q 11.2 1815 2104 27,400,001 33,500,000 gneg
17 q 12 2104 2255 33,500,001 39,800,000 gpos 50
17 q 21.1 2255 2461 39,800,001 40,200,000 gneg
17 q 21.2 2461 2599 40,200,001 42,800,000 gpos 25
17 q 21.31 2599 2874 42,800,001 46,800,000 gneg
17 q 21.32 2874 3025 46,800,001 49,300,000 gpos 25
17 q 21.33 3025 3176 49,300,001 52,100,000 gneg
17 q 22 3176 3383 52,100,001 59,500,000 gpos 75
17 q 23.1 3383 3451 59,500,001 60,200,000 gneg
17 q 23.2 3451 3658 60,200,001 63,100,000 gpos 75
17 q 23.3 3658 3781 63,100,001 64,600,000 gneg
17 q 24.1 3781 3850 64,600,001 66,200,000 gpos 50
17 q 24.2 3850 4001 66,200,001 69,100,000 gneg
17 q 24.3 4001 4166 69,100,001 72,900,000 gpos 75
17 q 25.1 4166 4400 72,900,001 76,800,000 gneg
17 q 25.2 4400 4510 76,800,001 77,200,000 gpos 25
17 q 25.3 4510 4950 77,200,001 83,257,441 gneg

References

  1. ^ a b "Search results - 17[CHR] AND "Homo sapiens"[Organism] AND ("has ccds"[Properties] AND alive[prop]) - Gene". NCBI. CCDS Release 20 for Homo sapiens. 2016-09-08. Retrieved 2017-05-28.
  2. ^ Tom Strachan; Andrew Read (2 April 2010). Human Molecular Genetics. Garland Science. p. 45. ISBN 978-1-136-84407-2.
  3. ^ a b Genome Decoration Page, NCBI. Ideogram data for Homo sapience (850 bphs, Assembly GRCh38.p3). Last update 2014-06-03. Retrieved 2017-04-26.
  4. ^ Pertea M, Salzberg SL (2010). "Between a chicken and a grape: estimating the number of human genes". Genome Biol. 11 (5): 206. doi:10.1186/gb-2010-11-5-206. PMC 2898077. PMID 20441615.
  5. ^ "Statistics & download files". HUGO Gene Nomenclature Committee. 2024-10-04. Retrieved 2024-10-06.
  6. ^ "Chromosome 17: Chromosome summary - Homo sapiens". Ensembl Release 88. 2017-03-29. Retrieved 2017-05-19.
  7. ^ "Human chromosome 17: entries, gene names and cross-references to MIM". UniProt. 2024-10-02. Retrieved 2024-10-06.
  8. ^ "Search results - 17[CHR] AND "Homo sapiens"[Organism] AND ("genetype protein coding"[Properties] AND alive[prop]) - Gene". NCBI. 2017-05-19. Retrieved 2017-05-20.
  9. ^ "Search results - 9[CHR] AND "Homo sapiens"[Organism] AND ( ("genetype miscrna"[Properties] OR "genetype ncrna"[Properties] OR "genetype rrna"[Properties] OR "genetype trna"[Properties] OR "genetype scrna"[Properties] OR "genetype snrna"[Properties] OR "genetype snorna"[Properties]) NOT "genetype protein coding"[Properties] AND alive[prop]) - Gene". NCBI. 2017-05-19. Retrieved 2017-05-20.
  10. ^ "Search results - 17[CHR] AND "Homo sapiens"[Organism] AND ("genetype pseudo"[Properties] AND alive[prop]) - Gene". NCBI. 2017-05-19. Retrieved 2017-05-20.
  11. ^ "Obsessive Compulsive Disorder". An Online Catalog of Human Genes and Genetic Disorders.
  12. ^ Genome Decoration Page, NCBI. Ideogram data for Homo sapience (400 bphs, Assembly GRCh38.p3). Last update 2014-03-04. Retrieved 2017-04-26.
  13. ^ Genome Decoration Page, NCBI. Ideogram data for Homo sapience (550 bphs, Assembly GRCh38.p3). Last update 2015-08-11. Retrieved 2017-04-26.
  14. ^ International Standing Committee on Human Cytogenetic Nomenclature (2013). ISCN 2013: An International System for Human Cytogenetic Nomenclature (2013). Karger Medical and Scientific Publishers. ISBN 978-3-318-02253-7.
  15. ^ Sethakulvichai, W.; Manitpornsut, S.; Wiboonrat, M.; Lilakiatsakun, W.; Assawamakin, A.; Tongsima, S. (2012). "Estimation of band level resolutions of human chromosome images". 2012 Ninth International Conference on Computer Science and Software Engineering (JCSSE). pp. 276–282. doi:10.1109/JCSSE.2012.6261965. ISBN 978-1-4673-1921-8. S2CID 16666470.
  16. ^ Genome Decoration Page, NCBI. Ideogram data for Homo sapience (850 bphs, Assembly GRCh38.p3). Last update 2014-06-03. Retrieved 2017-04-26.
  17. ^ "p": Short arm; "q": Long arm.
  18. ^ For cytogenetic banding nomenclature, see article locus.
  19. ^ a b These values (ISCN start/stop) are based on the length of bands/ideograms from the ISCN book, An International System for Human Cytogenetic Nomenclature (2013). Arbitrary unit.
  20. ^ gpos: 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.
Wikimedia Commons has media related to Human chromosome 17.
  • National Institutes of Health. "Chromosome 17". Genetics Home Reference. Archived from the original on 2007-06-30. Retrieved 2017-05-06.
  • "Chromosome 17". Human Genome Project Information Archive 1990–2003. Retrieved 2017-05-06.