Leat1 Gene Detail

Summary

• Symbol
  Leat1
• Name
  lncRNA Efnb2 associated transcript 1
• Synonyms
  A630009H07Rik

• Feature Type
  lncRNA gene
• IDs
  MGI:2443964
  NCBI Gene: 320406
• Alliance
  genome feature page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr8:8384610-8403546 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 8, 2.92 cM
• Mapping Data
  1 experiment

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2443964	lncRNA gene	Chr8:8384610-8403546 (+)
129S1/SvImJ	ENSMUSG00200013044	lncRNA gene	Chr8:5256124-5263477 (+)
A/J	ENSMUSG00195010596	lncRNA gene	Chr8:5622553-5629904 (+)
AKR/J	ENSMUSG00220011367	lncRNA gene	Chr8:5348153-5355504 (+)
BALB/cJ	ENSMUSG00180004867	lncRNA gene	Chr8:5261663-5269016 (+)
C3H/HeJ	ENSMUSG00175008523	lncRNA gene	Chr8:5402422-5409773 (+)
C57BL/6NJ	ENSMUSG00215010964	lncRNA gene	Chr8:5296072-5303423 (+)
CAROLI/EiJ	no annotation
CAST/EiJ	ENSTCUG00005020704	lncRNA gene	Chr8:5270906-5278266 (+)
CBA/J	ENSMUSG00210011322	lncRNA gene	Chr8:5255756-5263107 (+)
DBA/2J	ENSMUSG00185003954	lncRNA gene	Chr8:5390541-5397892 (+)
FVB/NJ	ENSMUSG00205005804	lncRNA gene	Chr8:5317192-5324544 (+)
JF1/MsJ	ENSUMUG00000043005	lncRNA gene	Chr8:5376317-5383669 (+)
LP/J	ENSMUSG00230008488	lncRNA gene	Chr8:7565826-7573189 (+)
NOD/ShiLtJ	ENSMUSG00190011995	lncRNA gene	Chr8:5373645-5380996 (+)
NZO/HlLtJ	ENSMUSG00225019358	lncRNA gene	Chr8:15422878-15430241 (+)
PWK/PhJ	ENSLUMG00010011220	lncRNA gene	Chr8:5301408-5308756 (+)
SPRET/EiJ	ENSMSPG00010018482	lncRNA gene	Chr8:5385562-5392574 (+)
WSB/EiJ	ENSIUOG00005005683	lncRNA gene	Chr8:5270473-5277887 (+)

Homology

• Gene Tree
  Leat1
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  4 phenotypes from 1 allele in 1 genetic background
  2 phenotype references
  

• All Mutations and Alleles
  1
• Transgenic
  1
• Find Mice (IMSR)
  0 strains or lines available
• Comparison Matrix
  Gene Expression + Phenotype

Female mice homozygous for a null allele exhibit reduced anogenital distance and fertility.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  2
• GO References
  1

Expression

• Assay Results
  626
• Tissues
  27
• cDNA Data
  3
• Literature Summary
  2

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  25

• Ensembl
  ENSMUSG00000109056 (Evidence)
• NCBI Gene
  320406

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000109056	Ensembl Gene Model | MGI Sequence Detail	18937	C57BL/6J
transcript	ENSMUST00000208485	Ensembl | MGI Sequence Detail	2159	Not Applicable

Molecular
Reagents

• All nucleic 4

  cDNA 3

  Primer pair 1

Other
Accession IDs

MGI:6404404

References

• Summaries
  All 6

  Developmental Gene Expression 2

  Gene Ontology 1

  Phenotypes 2
• Earliest
  J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
• Latest
  J:377724 Mattiske D, et al., A long non-coding RNA Leat1 mediates the hormone responsiveness of EfnB2 during male urogenital development. Commun Biol. 2025 Dec 15;9(1):57

TSS for Leat1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr76153	Chr8:8385065-8385080 (+)	463 bp