Lin54 Gene Detail

Summary

• Symbol
  Lin54
• Name
  lin-54 DREAM MuvB core complex component

• Feature Type
  protein coding gene
• IDs
  MGI:2140902
  NCBI Gene: 231506
• Alliance
  gene page
• Transcription Start Sites
  4 TSS

Location &
Maps

• Sequence Map
  Chr5:100589900-100648493 bp, - strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 5, 48.48 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  1296 from dbSNP Build 142
• Strain Annotations
  1

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2140902	protein coding gene	Chr5:100589892-100648506 (-)
129S1/SvImJ	no annotation
A/J	no annotation
AKR/J	no annotation
BALB/cJ	no annotation
C3H/HeJ	no annotation
C57BL/6NJ	no annotation
CAROLI/EiJ	no annotation
CAST/EiJ	no annotation
CBA/J	no annotation
DBA/2J	no annotation
FVB/NJ	no annotation
LP/J	no annotation
NOD/ShiLtJ	no annotation
NZO/HlLtJ	no annotation
PWK/PhJ	no annotation
SPRET/EiJ	no annotation
WSB/EiJ	no annotation

Homology

• Human Ortholog
  LIN54, lin-54 DREAM MuvB core complex component

• Vertebrate Orthologs
  3

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  LIN54, lin-54 DREAM MuvB core complex component
  
• Synonyms
  CXCDC1, JC8.6, MIP120, TCX1
• Links
  HGNC:25397

  NCBI Gene ID: 132660

  neXtProt AC: NX_Q6MZP7

  UniProt: Q6MZP7

  
  
• Chr Location
  4q21.22; chr4:82909973-83012941 (-)  GRCh38

---

• MGI Vertebrate Homology
  Lin54 stringent orthology
  1 human;1 mouse;1 rat;1 zebrafish
  
• HCOP
  vertebrate homology predictions: LIN54
• Gene Tree
  Lin54
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  15 phenotype references
  

• All Mutations and Alleles
  37
• Chemically induced (other)
  1
• Endonuclease-mediated
  4
• Gene trapped
  28
• Radiation induced
  1
• Spontaneous
  1
• Targeted
  2
• Genomic Mutations
  3 involving Lin54
• Incidental Mutations
  Mutagenetix , APF
• Find Mice (IMSR)
  50 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  11
• GO References
  4

Expression

• cDNA Data
  52

• Other Mouse Links
  Allen Institute
  GEO
• Other Vertebrate Links
  Xenbase lin54

Sequences &
Gene Models

• All Sequences
  46
• RefSeq
  18
• UniProt
  3
• CCDS
  CCDS19462.2, CCDS84919.1

• Ensembl
  ENSMUSG00000118665 (Evidence)
• NCBI Gene
  231506

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000118665	Ensembl Gene Model | MGI Sequence Detail	58594	C57BL/6J
transcript	ENSMUST00000239513	Ensembl | MGI Sequence Detail	4587	Not Applicable
polypeptide	ENSMUSP00000159392	Ensembl | MGI Sequence Detail	749	Not Applicable

Protein
Information

• UniProt
  3 Sequences
• Protein Ontology
  PR:000009824 protein lin-54
  (term hierarchy)
• InterPro Domains
  IPR005172 CRC domain
  IPR028307 Lin-54 family
  IPR033467 Tesmin/TSO1-like CXC domain
• GlyGen
  Q571G4 16 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (15 sites)

Molecular
Reagents

• All nucleic 52

  cDNA 52

  
  

  Microarray probesets 5

References

• Summaries
  All 36

  Gene Ontology 4

  Phenotypes 15
• Earliest
  J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
• Latest
  J:326541 Cyagen Biosciences Inc., Cyagen Biosciences Website. 2022;

TSS for Lin54:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr52097	Chr5:100648488-100648524 (-)	-13 bp
Tssr52096	Chr5:100648465-100648483 (-)	19 bp
Tssr52095	Chr5:100648451-100648462 (-)	36 bp
Tssr52094	Chr5:100647861-100647891 (-)	617 bp