Chromosome 13

Genes

Number of genes

The following are some of the gene count estimates of human chromosome 13. 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.

Gene list

The following is a partial list of genes on human chromosome 13. For complete list, see the link in the infobox on the right.

• ARGLU1: encoding protein Arginine and glutamate-rich protein 1
• ATP7B: ATPase, Cu++ transporting, beta polypeptide (Wilson disease)
• BRCA2: breast cancer 2, early onset
• BRCA3 encoding protein Breast cancer 3
• C13orf42: encoding protein C13orf42
• CAB39L: encoding protein Calcium-binding protein 39-like
• CARKD: Carbohydrate Kinase Domain Containing Protein (Unknown Function)
• CCDC70: Coiled-coil domain-containing protein 70
• CHAMP1: Chromosome alignment-maintaining phosphoprotein 1
• CKAP2: Cytoskeleton-associated protein 2
• CLYBL: Citrate lyase beta like
• CPB2-AS1: encoding protein Cpb2 antisense rna 1
• CRYL1: encoding protein Crystallin, lambda 1
• DLEU1: a long non-coding RNA
• DLEU2: Deleted in lymphocytic leukemia 1
• DZIP1: DAZ interacting zinc finger protein 1
• EDNRB: endothelin receptor type B
• ELF1: encoding protein E74-like factor 1 (ets domain transcription factor)
• EPSTI1: encoding protein Epithelial stromal interaction 1
• ESD: S-formylglutathione hydrolase
• FAM155A: encoding protein Family with sequence similarity 155, member A
• FLT1: Fms related tyrosine kinase 1 (Vascular endothelial growth factor receptor 1)
• GJB2: gap junction protein, beta 2, 26kDa (connexin 26)
• GJB6: gap junction protein, beta 6 (connexin 30)
• Glypican 5: encoding protein Glypican-5
• HTR2A: 5-HT2A receptor
• INTS6: encoding protein Integrator complex subunit 6
• ITGBL1: encoding protein Integrin subunit beta like 1
• GPALPP1: encoding protein KIAA1704
• L1TD1P1: encoding protein LINE-1 type transposase domain containing 1 pseudogene 1
• LACC1: encoding protein Laccase (multicopper oxidoreductase) domain containing 1
• LHFP: encoding protein Lipoma HMGIC fusion partner
• LINC00327: Long intergenic non-protein coding RNA 327
• LINC00346: Long intergenic non-protein coding RNA 346
• LINC00598: Long intergenic non-protein coding rna 598
• LOC107984557 encoding protein Methylcytosine dioxygenase TET1-like
• MBNL2: encoding protein Muscleblind-like protein 2
• MIPEP: encoding enzyme Mitochondrial intermediate peptidase
• MIRH1: encoding protein Putative microRNA host gene 1 protein
• MTRF1:
• MTUS2: encoding protein Microtubule associated scaffold protein 2
• NDFIP2: encoding protein NEDD4 family-interacting protein 2
• NUPL1: encoding protein Nucleoporin p58/p45
• OLFM4: encoding protein Olfactomedin 4
• POMP: encoding proteasome maturation protein
• PCCA: propionyl Coenzyme A carboxylase, alpha polypeptide
• RB1: retinoblastoma 1 (including osteosarcoma)
• RCBTB1: encoding protein RCC1 and BTB domain-containing protein 1
• RCBTB2: encoding protein RCC1 and BTB domain-containing protein 2
• RGCC: encoding protein Regulator of cell cycle RGCC
• RNA28S1: encoding protein RNA, 28S ribosomal 1
• RNR1: encoding RNA, ribosomal 45S cluster 1
• SCEL: encoding protein Sciellin
• SLC46A3: encoding protein Solute carrier family 46, member 3
• SLITRK1: encoding protein SLIT and NTRK-like protein 1
• SLITRK1: mutation in this gene causes some (although very few) cases of Tourette syndrome and trichotillomania
• SLITRK5: encoding protein SLIT and NTRK-like protein 5
• SLITRK6: encoding protein SLIT and NTRK-like protein 6
• SOX21: Transcription factor SOX-21 is a protein that in humans is encoded by the SOX21; its disruption can lead to types of alopecia in mice.
• SPRYD7: encoding protein SPRY domain-containing protein 7
• SUPT20H: SPT20 homolog
• TDRD3: encoding protein Tudor domain-containing protein 3
• TM9SF2: encoding protein Transmembrane 9 superfamily member 2
• TPT1: Translationally controlled tumor protein (TCTP)
• TSC22D1: encoding protein TSC22 domain family protein 1
• UBL3: encoding protein Ubiquitin-like protein 3
• WBP4: encoding protein WW domain-binding protein 4
• XPO4: encoding protein Exportin-4
• ZC3H13: encoding protein Zinc finger CCCH domain-containing protein 13
• ZMYM2: encoding protein Zinc finger MYM-type protein 2

Diseases and disorders

The following diseases and disorders are some of those related to genes on chromosome 13:

• 13q deletion syndrome
• Bipolar disorder
• Bladder cancer
• Breast cancer
• Heterochromia
• Hirschsprung's disease
• Maturity onset diabetes of the young type 4
• Nonsyndromic deafness
• Propionic acidemia
• Retinoblastoma
• Schizophrenia
• Waardenburg syndrome
• Wilson's disease
• Patau syndrome
• Chronic Lymphocytic Leukemia (Acquired defect)
• Young–Madders syndrome

Chromosomal conditions

The following conditions are caused by changes in the structure or number of copies of chromosome 13:

• Retinoblastoma: A small percentage of retinoblastoma cases are caused by deletions in the region of chromosome 13 (13q14) containing the RB1 gene. Children with these chromosomal deletions may also have intellectual disability, slow growth, and characteristic facial features (such as prominent eyebrows, a broad nasal bridge, a short nose, and ear abnormalities). Researchers have not determined which other genes are located in the deleted region, but a loss of several genes is likely responsible for these developmental problems.
• Trisomy 13: Trisomy 13 occurs when each cell in the body has three copies of chromosome 13 instead of the usual two copies. Trisomy 13 can also result from an extra copy of chromosome 13 in only some of the body's cells (mosaic trisomy 13). In a small percentage of cases, trisomy 13 is caused by a rearrangement of chromosomal material between chromosome 13 and another chromosome. As a result, a person has the two usual copies of chromosome 13, plus extra material from chromosome 13 attached to another chromosome. These cases are called translocation trisomy 13. Extra material from chromosome 13 disrupts the course of normal development, causing the characteristic signs and symptoms of trisomy 13. Researchers are not yet certain how this extra genetic material leads to the features of the disorder, which include severely abnormal cerebral functions, a small cranium, retardation, non functional eyes and heart defects.
• Other chromosomal conditions: Partial monosomy 13q is a rare chromosomal disorder that results when a piece of the long arm (q) of chromosome 13 is missing (monosomic). Infants born with partial monosomy 13q may exhibit low birth weight, malformations of the head and face (craniofacial region), skeletal abnormalities (especially of the hands and feet), and other physical abnormalities. Intellectual disability is characteristic of this condition. The mortality rate during infancy is high among individuals born with this disorder. Almost all cases of partial monosomy 13q occur randomly for no apparent reason (sporadic).

Cytogenetic band

References

References

1. (2 April 2010). "Human Molecular Genetics". Garland Science.
2. Genome Decoration Page, NCBI. [https://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.
3. Pertea M, Salzberg SL. (2010). "Between a chicken and a grape: estimating the number of human genes.". Genome Biol.
4. (2016-09-08). "Search results - 13[CHR] AND "Homo sapiens"[Organism] AND ("has ccds"[Properties] AND alive[prop]) - Gene".
5. (2017-05-12). "Statistics & Downloads for chromosome 13".
6. (2017-03-29). "Chromosome 13: Chromosome summary - Homo sapiens".
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8. (2017-05-19). "Search results - 13[CHR] AND "Homo sapiens"[Organism] AND ("genetype protein coding"[Properties] AND alive[prop]) - Gene".
9. (2017-05-19). "Search results - 13[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".
10. (2017-05-19). "Search results - 13[CHR] AND "Homo sapiens"[Organism] AND ("genetype pseudo"[Properties] AND alive[prop]) - Gene".
11. (2004). "The DNA sequence and analysis of human chromosome 13". Nature.
12. Genome Decoration Page, NCBI. [https://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.
13. Genome Decoration Page, NCBI. [https://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.
14. International Standing Committee on Human Cytogenetic Nomenclature. (2013). "ISCN 2013: An International System for Human Cytogenetic Nomenclature (2013)". Karger Medical and Scientific Publishers.
15. (2012). "2012 Ninth International Conference on Computer Science and Software Engineering (JCSSE)".
16. "'''p'''": Short arm; "'''q'''": Long arm.
17. For cytogenetic banding nomenclature, see article [[Locus (genetics). locus]].
18. 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]].
19. '''gpos''': Region which is positively stained by [[G banding]], generally [[GC-content. AT-rich]] and gene poor; '''gneg''': Region which is negatively stained by G banding, generally [[GC-content. CG-rich]] and gene rich; '''acen''' [[Centromere]]. '''var''': Variable region; '''stalk''': Stalk.
20. (2000). "Chromosome 13". Genet. Test..
21. (2003). "Retinoblastoma associated with chromosomal 13q14 deletion mosaicism". Ophthalmology.