Igkv3-5 Gene Detail

Summary

• Symbol
  Igkv3-5
• Name
  immunoglobulin kappa chain variable 3-5
• Synonyms
  Gm16774, Igk-V21-5

• Feature Type
  gene segment
• IDs
  MGI:1330854
  NCBI Gene: 667940
• Alliance
  gene page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr6:70640282-70640879 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 6, 32.01 cM
• Mapping Data
  2 experiments

Strain
Comparison

• SNPs within 2kb
  116 from dbSNP Build 142
• Strain Annotations
  13

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1330854	gene segment	Chr6:70640259-70640879 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0000181	gene segment	Chr6:70991832-71081356 (+)
A/J	MGP_AJ_G0000159	gene segment	Chr6:68389550-68390161 (+)
AKR/J	MGP_AKRJ_G0000154	gene segment	Chr6:70358175-70358786 (+)
BALB/cJ	MGP_BALBcJ_G0000148	gene segment	Chr6:68422838-68423458 (+)
C3H/HeJ	no annotation
C57BL/6NJ	MGP_C57BL6NJ_G0000220	gene segment	Chr6:72840251-72840844 (+)
CAROLI/EiJ	no annotation
CAST/EiJ	no annotation
CBA/J	MGP_CBAJ_G0000151	gene segment	Chr6:75835941-75836552 (+)
DBA/2J	MGP_DBA2J_G0000146	gene segment	Chr6:67744730-67745341 (+)
FVB/NJ	MGP_FVBNJ_G0000148	gene segment	Chr6:67112473-67113084 (+)
LP/J	MGP_LPJ_G0000188	gene segment	Chr6:70924022-70928480 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0000156	gene segment	Chr6:79401637-79402248 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0000207	gene segment	Chr6:70199417-70200039 (+)
PWK/PhJ	no annotation
SPRET/EiJ	no annotation
WSB/EiJ	MGP_WSBEiJ_G0000156	gene segment	Chr6:70420255-70420867 (+)

Homology

• Human Ortholog
  IGKV3-11, immunoglobulin kappa variable 3-11

• Vertebrate Orthologs
  11

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  IGKV3-11, immunoglobulin kappa variable 3-11
  
• Synonyms
  IGKV311, L6
• Links
  HGNC:5815

  NCBI Gene ID: 28914

  
  
• Chr Location
  2p11.2; chr2:89027171-89027731 (-)  GRCh38

---

• Human Ortholog
  IGKV3-15, immunoglobulin kappa variable 3-15
  
• Synonyms
  IGKV315, L2
• Links
  HGNC:5816

  NCBI Gene ID: 28913

  UniProt: P01624

  
  
• Chr Location
  2p11.2; chr2:89085177-89085787 (-)  GRCh38

---

• Human Ortholog
  IGKV3-20, immunoglobulin kappa variable 3-20
  
• Synonyms
  13K18, A27, IGKV320
• Links
  HGNC:5817

  NCBI Gene ID: 28912

  UniProt: P01619

  
  
• Chr Location
  2p11.2; chr2:89142574-89143160 (-)  GRCh38

---

• Human Ortholog
  IGKV3-7, immunoglobulin kappa variable 3-7 (non-functional)
  
• Synonyms
  IGKV37, L10, L10a, Vh
• Links
  HGNC:5821

  NCBI Gene ID: 28915

  UniProt: A0A075B6H7

  
  
• Chr Location
  2p11.2; chr2:88978468-88979081 (-)  GRCh38

---

• Human Ortholog
  IGKV3D-11, immunoglobulin kappa variable 3D-11
  
• Synonyms
  IGKV3D11, L20
• Links
  HGNC:5823

  NCBI Gene ID: 28876

  UniProt: A0A0A0MRZ8

  
  
• Chr Location
  2p11.2; chr2:90172802-90173414 (+)  GRCh38

---

• Human Ortholog
  IGKV3D-15, immunoglobulin kappa variable 3D-15
  
• Synonyms
  IGKV3D15, L16, L16a, L16b, L16c
• Links
  HGNC:5824

  NCBI Gene ID: 28875

  UniProt: A0A087WSY6

  
  
• Chr Location
  2p11.2; chr2:90114838-90115402 (+)  GRCh38

---

• Human Ortholog
  IGKV3D-20, immunoglobulin kappa variable 3D-20
  
• Synonyms
  A11, A11a, IGKV3D20
• Links
  HGNC:5825

  NCBI Gene ID: 28874

  UniProt: A0A0C4DH25

  
  
• Chr Location
  2p11.2; chr2:90038848-90039479 (+)  GRCh38

---

• Human Ortholog
  IGKV3D-7, immunoglobulin kappa variable 3D-7
  
• Synonyms
  IGKV3D7, L25
• Links
  HGNC:5829

  NCBI Gene ID: 28877

  UniProt: A0A0C4DH55

  
  
• Chr Location
  2p11.2; chr2:90234812-90235370 (+)  GRCh38

---

• Human Ortholog
  IGKV3OR2-268, immunoglobulin kappa variable 3/OR2-268 (non-functional)
  
• Synonyms
  IGKV268, IGKV3OR2268, IGKV3OR2-268A, IGKV3OR2268A
• Links
  HGNC:5830

  NCBI Gene ID: 3523

  
  
• Chr Location
  2p12; chr2:87338511-87339035 (+)  GRCh38

---

• MGI Vertebrate Homology
  Igkv3-5 stringent orthology
  9 human;1 mouse;1 rat;1 zebrafish
  
• HCOP
  vertebrate homology predictions: IGKV3-11, IGKV3-15, IGKV3-20, IGKV3-7, IGKV3D-11, IGKV3D-15, IGKV3D-20, IGKV3D-7, IGKV3OR2-268
• Gene Tree
  Igkv3-5
  

Mutations,
Alleles, and
Phenotypes

• Incidental Mutations
  APF
• Find Mice (IMSR)
  4 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  6
• GO References
  2

Expression

• Assay Results
  706

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  19
• RefSeq
  1
• UniProt
  1

• Ensembl
  ENSMUSG00000095335 (Evidence)
• NCBI Gene
  667940

Representative Sequences			Length	Strain/Species
genomic	667940	NCBI Gene Model | MGI Sequence Detail	598	C57BL/6J
polypeptide	A0A140T8M6	UniProt | EBI | MGI Sequence Detail	119	Not Applicable

Protein
Information

• UniProt
  1 Sequence
• InterPro Domains
  IPR007110 Immunoglobulin-like domain
  IPR036179 Immunoglobulin-like domain superfamily
  IPR013783 Immunoglobulin-like fold
  IPR003599 Immunoglobulin subtype
  IPR050150 Immunoglobulin Variable Light Chain
  IPR013106 Immunoglobulin V-set domain

Molecular
Reagents

• All nucleic 4

  Genomic 4

Other
Accession IDs

MGI:4439698

References

• Summaries
  All 8

  Gene Ontology 2
• Earliest
  J:47632 Kirschbaum T, et al., The 3' part of the immunoglobulin kappa locus of the mouse. Eur J Immunol. 1998 May;28(5):1458-66
• Latest
  J:164272 Giudicelli V, et al., IMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D256-61

TSS for Igkv3-5:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr56942	Chr6:70640233-70640240 (+)	-45 bp