AI480526 Gene Detail

Summary

• Symbol
  AI480526
• Name
  expressed sequence AI480526

• Feature Type
  lncRNA gene
• IDs
  MGI:2140910
  NCBI Gene: 100675
• Alliance
  genome feature page
• Transcription Start Sites
  12 TSS

Location &
Maps

• Sequence Map
  Chr5:123271784-123281539 bp, - strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 5, 62.79 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  154 from dbSNP Build 142
• Strain Annotations
  19

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2140910	lncRNA gene	Chr5:123271784-123281539 (-)
129S1/SvImJ	ENSMUSG00200030454	lncRNA gene	Chr5:117002531-117010469 (-)
A/J	ENSMUSG00195012929	lncRNA gene	Chr5:116523953-116531891 (-)
AKR/J	ENSMUSG00220046504	lncRNA gene	Chr5:116034323-116042265 (-)
BALB/cJ	ENSMUSG00180039593	lncRNA gene	Chr5:116638917-116646855 (-)
C3H/HeJ	ENSMUSG00175034981	lncRNA gene	Chr5:118654176-118662118 (-)
C57BL/6NJ	ENSMUSG00215044260	lncRNA gene	Chr5:116680026-116687970 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0006189	lincRNA gene	Chr5:116150499-116158421 (-)
CAST/EiJ	ENSTCUG00005041203	lncRNA gene	Chr5:115943858-115951787 (-)
CBA/J	ENSMUSG00210010324	lncRNA gene	Chr5:117404947-117412889 (-)
DBA/2J	ENSMUSG00185055107	lncRNA gene	Chr5:120456198-120464141 (-)
FVB/NJ	ENSMUSG00205045830	lncRNA gene	Chr5:116310271-116318215 (-)
JF1/MsJ	ENSUMUG00000052361	lncRNA gene	Chr5:123314517-123322464 (-)
LP/J	ENSMUSG00230047877	lncRNA gene	Chr5:124524526-124532464 (-)
NOD/ShiLtJ	ENSMUSG00190044519	lncRNA gene	Chr5:116330609-116338551 (-)
NZO/HlLtJ	ENSMUSG00225014187	lncRNA gene	Chr5:132212967-132220911 (-)
PWK/PhJ	ENSLUMG00010045276	lncRNA gene	Chr5:115211824-115219858 (-)
SPRET/EiJ	ENSMSPG00010044222	lncRNA gene	Chr5:118526717-118534611 (-)
WSB/EiJ	ENSIUOG00005019285	lncRNA gene	Chr5:119018663-119026604 (-)

Homology

• Human Ortholog
  LINC01089, long independently transcribed non-coding RNA 1089

• Vertebrate Orthologs
  1

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  LINC01089, long independently transcribed non-coding RNA 1089
  
• Synonyms
  LIMT
• Links
  HGNC:27886

  NCBI Gene ID: 338799

  
  
• Chr Location
  12q24.31; chr12:121795267-121803906 (-)  GRCh38

---

• MGI Vertebrate Homology
  AI480526 stringent orthology
  1 human;1 mouse
  
• HCOP
  vertebrate homology predictions: LINC01089
• Gene Tree
  AI480526
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  8 phenotype references
  

• All Mutations and Alleles
  22
• Chemically induced (other)
  1
• Gene trapped
  19
• Radiation induced
  1
• Targeted
  1
• Genomic Mutations
  2 involving AI480526
• Find Mice (IMSR)
  159 strains or lines available

Expression

• Assay Results
  597
• cDNA Data
  15

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  279
• RefSeq
  2

• Ensembl
  ENSMUSG00000090086 (Evidence)
• NCBI Gene
  100675

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000090086	Ensembl Gene Model | MGI Sequence Detail	9756	C57BL/6J
transcript	ENSMUST00000242362	Ensembl | MGI Sequence Detail	5088	Not Applicable

Molecular
Reagents

• All nucleic 15

  cDNA 15

  
  

  Microarray probesets 2

References

• Summaries
  All 18

  Phenotypes 8
• 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:142754 Hansen GM, et al., Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Genome Res. 2008 Oct;18(10):1670-9

TSS for AI480526:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr53216	Chr5:123279407-123279425 (-)	2,123 bp
Tssr53215	Chr5:123279343-123279396 (-)	2,169 bp
Tssr53214	Chr5:123279142-123279157 (-)	2,389 bp
Tssr53213	Chr5:123278774-123278794 (-)	2,755 bp
Tssr53212	Chr5:123278198-123278212 (-)	3,334 bp
Tssr53211	Chr5:123278163-123278188 (-)	3,363 bp
Tssr53210	Chr5:123278032-123278043 (-)	3,501 bp
Tssr53209	Chr5:123277136-123277153 (-)	4,394 bp
Tssr53208	Chr5:123275781-123275803 (-)	5,747 bp
Tssr53207	Chr5:123274601-123274618 (-)	6,929 bp
Tssr53206	Chr5:123273611-123273622 (-)	7,922 bp
Tssr53205	Chr5:123273570-123273593 (-)	7,957 bp