Lingo4 Gene Detail

Summary

• Symbol
  Lingo4
• Name
  leucine rich repeat and Ig domain containing 4
• Synonyms
  A530050P17Rik, LERN4, Lrrn6d

• Feature Type
  protein coding gene
• IDs
  MGI:2444651
  NCBI Gene: 320747
• Alliance
  gene page
• Transcription Start Sites
  2 TSS

Location &
Maps

• Sequence Map
  Chr3:94306526-94311820 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 3, 40.59 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  61 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2444651	protein coding gene	Chr3:94305824-94311820 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0027548	protein coding gene	Chr3:94971995-94977992 (+)
A/J	MGP_AJ_G0027507	protein coding gene	Chr3:92082021-92088012 (+)
AKR/J	MGP_AKRJ_G0027475	protein coding gene	Chr3:94172602-94178599 (+)
BALB/cJ	MGP_BALBcJ_G0027518	protein coding gene	Chr3:91784575-91790545 (+)
C3H/HeJ	MGP_C3HHeJ_G0027254	protein coding gene	Chr3:94463450-94469440 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0027967	protein coding gene	Chr3:98562662-98568632 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025309	protein coding gene	Chr3:88572273-88578240 (+)
CAST/EiJ	MGP_CASTEiJ_G0026702	protein coding gene	Chr3:93813998-93819992 (+)
CBA/J	MGP_CBAJ_G0027230	protein coding gene	Chr3:102053295-102059289 (+)
DBA/2J	MGP_DBA2J_G0027369	protein coding gene	Chr3:91341784-91347775 (+)
FVB/NJ	MGP_FVBNJ_G0027339	protein coding gene	Chr3:89446306-89452302 (+)
LP/J	MGP_LPJ_G0027477	protein coding gene	Chr3:96280435-96286431 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027366	protein coding gene	Chr3:108286852-108292823 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028021	protein coding gene	Chr3:93854750-93860720 (+)
PWK/PhJ	MGP_PWKPhJ_G0026430	protein coding gene	Chr3:91233668-91239632 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0026251	protein coding gene	Chr3:92194210-92200163 (+)
WSB/EiJ	MGP_WSBEiJ_G0026785	protein coding gene	Chr3:94202709-94208674 (+)

Homology

• Human Ortholog
  LINGO4, leucine rich repeat and Ig domain containing 4

• Vertebrate Orthologs
  4

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  LINGO4, leucine rich repeat and Ig domain containing 4
  
• Synonyms
  DAAT9248, LRRN6D, PRO34002
• Links
  HGNC:31814

  NCBI Gene ID: 339398

  neXtProt AC: NX_Q6UY18

  UniProt: Q6UY18

  
  
• Chr Location
  1q21.3; chr1:151800264-151805419 (-)  GRCh38

---

• MGI Vertebrate Homology
  Lingo4 stringent orthology
  1 human;1 mouse;1 rat;2 zebrafish
  
• HCOP
  vertebrate homology predictions: LINGO4
• Gene Tree
  Lingo4
  

Human Diseases

• References
  1 with disease annotations

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  7 phenotype references
  

• All Mutations and Alleles
  8
• Chemically induced (other)
  1
• Endonuclease-mediated
  1
• Radiation induced
  1
• Targeted
  5
• Genomic Mutations
  2 involving Lingo4
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  33 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  9
• GO References
  4

Expression

• Assay Results
  740
• Tissues
  29
• cDNA Data
  10
• Literature Summary
  2

Images

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas
• Other Vertebrate Links
  Xenbase lingo4
  ZFIN lingo4b

Sequences &
Gene Models

• All Sequences
  32
• RefSeq
  4
• UniProt
  2
• CCDS
  CCDS17592.1

• Ensembl
  ENSMUSG00000044505 (Evidence)
• NCBI Gene
  320747

Representative Sequences			Length	Strain/Species
genomic	320747	NCBI Gene Model | MGI Sequence Detail	5295	C57BL/6J
transcript	NM_001368653	RefSeq | MGI Sequence Detail	4389	C57BL/6
polypeptide	Q149C3	UniProt | EBI | MGI Sequence Detail	593	Not Applicable

Protein
Information

• UniProt
  2 Sequences
• Protein Ontology
  PR:000031008 leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 4
  (term hierarchy)
• InterPro Domains
  IPR000483 Cysteine-rich flanking region, C-terminal
  IPR013098 Immunoglobulin I-set
  IPR007110 Immunoglobulin-like domain
  IPR036179 Immunoglobulin-like domain superfamily
  IPR013783 Immunoglobulin-like fold
  IPR003599 Immunoglobulin subtype
  IPR003598 Immunoglobulin subtype 2
  IPR001611 Leucine-rich repeat
  IPR032675 Leucine-rich repeat domain superfamily
  IPR000372 Leucine-rich repeat N-terminal domain
  IPR003591 Leucine-rich repeat, typical subtype

Molecular
Reagents

• All nucleic 13

  cDNA 10

  Primer pair 3

  
  

  Microarray probesets 1

References

• Summaries
  All 29

  Developmental Gene Expression 2

  Diseases 1

  Gene Ontology 4

  Phenotypes 7
• Earliest
  J:70677 Cook SA, et al., Mouse paracentric inversion In(3)55Rk mutates the urate oxidase gene. Cytogenet Cell Genet. 2001;93(1-2):77-82
• Latest
  J:302829 Lu J, et al., Mouse models for human hyperuricaemia: a critical review. Nat Rev Rheumatol. 2019 Jul;15(7):413-426

TSS for Lingo4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr30446	Chr3:94305842-94305845 (+)	-682 bp
Tssr30447	Chr3:94306579-94306640 (+)	84 bp