Igkv12-41 Gene Detail

Summary

• Symbol
  Igkv12-41
• Name
  immunoglobulin kappa chain variable 12-41
• Synonyms
  Gm16848

• Feature Type
  gene segment
• IDs
  MGI:4439772
  NCBI Gene: 619960
• Alliance
  gene page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr6:69835404-69835868 bp, - strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 6, 31.65 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  187 from dbSNP Build 142
• Strain Annotations
  7

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_4439772	gene segment	Chr6:69835404-69835868 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0000157	gene segment	Chr6:70205123-70205587 (-)
A/J	no annotation
AKR/J	no annotation
BALB/cJ	no annotation
C3H/HeJ	no annotation
C57BL/6NJ	MGP_C57BL6NJ_G0000196	gene segment	Chr6:71966605-71967069 (-)
CAROLI/EiJ	no annotation
CAST/EiJ	no annotation
CBA/J	no annotation
DBA/2J	no annotation
FVB/NJ	MGP_FVBNJ_G0000130	gene segment	Chr6:66290081-66290545 (-)
LP/J	MGP_LPJ_G0000161	gene segment	Chr6:70058101-70058565 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0000142	gene segment	Chr6:78476945-78477412 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0000178	gene segment	Chr6:69314372-69314836 (-)
PWK/PhJ	no annotation
SPRET/EiJ	no annotation
WSB/EiJ	no annotation

Homology

• Human Ortholog
  IGKV1-13, immunoglobulin kappa variable 1-13

• Vertebrate Orthologs
  10

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  IGKV1-13, immunoglobulin kappa variable 1-13
  
• Synonyms
  IGKV113, L18
• Links
  HGNC:5731

  NCBI Gene ID: 28939

  UniProt: P0DP09

  
  
• Chr Location
  2p11.2; chr2:89045990-89046466 (-)  GRCh38

---

• Human Ortholog
  IGKV1-33, immunoglobulin kappa variable 1-33
  
• Synonyms
  IGKV133, O18
• Links
  HGNC:5737

  NCBI Gene ID: 28933

  
  
• Chr Location
  2p11.2; chr2:89268001-89268506 (-)  GRCh38

---

• Human Ortholog
  IGKV1-39, immunoglobulin kappa variable 1-39
  
• Synonyms
  IGKV139, O12, O12a
• Links
  HGNC:5740

  NCBI Gene ID: 28930

  UniProt: P01597

  
  
• Chr Location
  2p11.2; chr2:89319625-89320146 (-)  GRCh38

---

• Human Ortholog
  IGKV1-8, immunoglobulin kappa variable 1-8
  
• Synonyms
  IGKV18, L9
• Links
  HGNC:5743

  NCBI Gene ID: 28942

  UniProt: A0A0C4DH67

  
  
• Chr Location
  2p11.2; chr2:88992409-88992931 (-)  GRCh38

---

• Human Ortholog
  IGKV1D-13, immunoglobulin kappa variable 1D-13
  
• Synonyms
  IGKV1D13, L18
• Links
  HGNC:5747

  NCBI Gene ID: 28902

  UniProt: A0A0B4J2D9

  
  
• Chr Location
  2p11.2; chr2:90154073-90154574 (+)  GRCh38

---

• Human Ortholog
  IGKV1D-33, immunoglobulin kappa variable 1D-33
  
• Synonyms
  IGKV1D33, O8
• Links
  HGNC:5753

  NCBI Gene ID: 28896

  UniProt: P01593

  
  
• Chr Location
  2p11.2; chr2:89913982-89914545 (+)  GRCh38

---

• Human Ortholog
  IGKV1D-39, immunoglobulin kappa variable 1D-39
  
• Synonyms
  IGKV1D39, O2
• Links
  HGNC:5756

  NCBI Gene ID: 28893

  UniProt: P04432

  
  
• Chr Location
  2p11.2; chr2:89862482-89862981 (+)  GRCh38

---

• Human Ortholog
  IGKV1D-43, immunoglobulin kappa variable 1D-43
  
• Synonyms
  IGKV1D43, L23, L23a
• Links
  HGNC:5758

  NCBI Gene ID: 28891

  UniProt: A0A0B4J1Z2

  
  
• Chr Location
  2p11.2; chr2:90209873-90210529 (+)  GRCh38

---

• Human Ortholog
  IGKV1D-8, immunoglobulin kappa variable 1D-8
  
• Synonyms
  IGKV1D8, L24, L24a
• Links
  HGNC:5759

  NCBI Gene ID: 28904

  UniProt: A0A087WSZ0

  
  
• Chr Location
  2p11.2; chr2:90220727-90221384 (+)  GRCh38

---

• Human Ortholog
  IGKV1OR2-108, immunoglobulin kappa variable 1/OR2-108 (non-functional)
  
• Synonyms
  IGKV1OR2108, IGO1
• Links
  HGNC:5767

  NCBI Gene ID: 28862

  
  
• Chr Location
  2q12-q14; chr2:113406396-113406872 (+)  GRCh38

---

• MGI Vertebrate Homology
  Igkv12-41 stringent orthology
  10 human;1 mouse
  
• HCOP
  vertebrate homology predictions: IGKV1-13, IGKV1-33, IGKV1-39, IGKV1-8, IGKV1D-13, IGKV1D-33, IGKV1D-39, IGKV1D-43, IGKV1D-8, IGKV1OR2-108
• Gene Tree
  Igkv12-41
  

Mutations,
Alleles, and
Phenotypes

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

Gene Ontology
(GO)
Classifications

• All GO Annotations
  2
• GO References
  1

Expression

• Assay Results
  706

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  15
• RefSeq
  1
• UniProt
  1

• Ensembl
  ENSMUSG00000095007 (Evidence)
• NCBI Gene
  619960

Representative Sequences			Length	Strain/Species
genomic	619960	NCBI Gene Model | MGI Sequence Detail	465	C57BL/6J
polypeptide	P01635	UniProt | EBI | MGI Sequence Detail	115	Not Applicable

Protein
Information

• UniProt
  1 Sequence
• PDB
  1A2Y, 1A7N, 1A7O, 1A7P, 1A7Q, 1A7R, 1DVF, 1KIP, 1KIQ, 1QBL, 1QBM, 1VFA, 1VFB, 1WEJ
• 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 3

  Genomic 3

References

• Summaries
  All 10

  Gene Ontology 1
• Earliest
  J:28601 Seidman JG, et al., Multiple related immunoglobulin variable-region genes identified by cloning and sequence analysis. Proc Natl Acad Sci U S A. 1978 Aug;75(8):3881-5
• Latest
  J:27711 Nishioka Y, et al., Organization and complete sequence of identical embryonic and plasmacytoma kappa V-region genes. J Biol Chem. 1980 Apr 25;255(8):3691-4

TSS for Igkv12-41:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr61300	Chr6:69835886-69835916 (-)	-33 bp