Limd1 (LIM domain containing 1) - Rat Genome Database

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Gene: Limd1 (LIM domain containing 1) Chinchilla lanigera
Analyze
Symbol: Limd1
Name: LIM domain containing 1 (Ensembl:LIM domains containing 1)
RGD ID: 8818554
Description: ENCODES a protein that exhibits transcription corepressor activity (ortholog); INVOLVED IN cell migration (ortholog); cytoskeleton organization (ortholog); miRNA-mediated gene silencing by inhibition of translation (ortholog); ASSOCIATED WITH genetic disease (ortholog); Progressive Microcephaly with Seizures and Cerebral and Cerebellar Atrophy (ortholog); FOUND IN adherens junction (ortholog); cytoplasm (ortholog); focal adhesion (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LIM domain-containing protein 1; LIM domains containing 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542026,291,529 - 26,328,637 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542026,290,792 - 26,328,637 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Limd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542026,291,529 - 26,328,637 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542026,290,792 - 26,328,637 (-)NCBIChiLan1.0ChiLan1.0
LIMD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38345,594,751 - 45,686,341 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl345,555,394 - 45,686,341 (+)EnsemblGRCh38hg38GRCh38
GRCh37345,636,243 - 45,727,833 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36345,611,327 - 45,697,759 (+)NCBINCBI36Build 36hg18NCBI36
Build 34345,611,354 - 45,696,569NCBI
Celera345,574,319 - 45,660,680 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef345,680,549 - 45,767,058 (+)NCBIHuRef
CHM1_1345,586,336 - 45,672,049 (+)NCBICHM1_1
T2T-CHM13v2.0345,610,699 - 45,702,290 (+)NCBIT2T-CHM13v2.0
Limd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399123,306,790 - 123,350,617 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9123,307,771 - 123,350,617 (+)EnsemblGRCm39 Ensembl
GRCm389123,478,661 - 123,521,552 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9123,478,706 - 123,521,552 (+)EnsemblGRCm38mm10GRCm38
MGSCv379123,387,819 - 123,430,670 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369123,327,404 - 123,370,215 (+)NCBIMGSCv36mm8
Celera9123,931,088 - 123,973,997 (+)NCBICelera
Cytogenetic Map9F4NCBI
cM Map974.0NCBI
Limd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88131,998,262 - 132,045,924 (+)NCBIGRCr8
mRatBN7.28123,121,363 - 123,168,476 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8123,122,460 - 123,167,714 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8128,711,800 - 128,757,202 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08126,910,762 - 126,956,171 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08124,740,247 - 124,785,698 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08132,553,218 - 132,598,826 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8132,553,218 - 132,598,812 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08131,705,918 - 131,751,526 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48128,249,326 - 128,294,587 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18128,269,450 - 128,313,319 (+)NCBI
Celera8122,232,892 - 122,278,044 (+)NCBICelera
Cytogenetic Map8q32NCBI
LIMD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2245,558,140 - 45,645,858 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1345,563,866 - 45,650,625 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0345,500,413 - 45,587,850 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1346,610,315 - 46,695,406 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl346,610,315 - 46,695,406 (+)Ensemblpanpan1.1panPan2
LIMD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12042,797,316 - 42,867,292 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2042,799,142 - 42,867,428 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2042,717,543 - 42,784,125 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02043,282,706 - 43,351,819 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2043,283,946 - 43,351,345 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12042,525,754 - 42,592,126 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02042,933,222 - 42,999,639 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02043,208,381 - 43,274,716 (-)NCBIUU_Cfam_GSD_1.0
Limd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118197,908,251 - 197,962,194 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936695259,209 - 314,535 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936695260,586 - 314,521 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LIMD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1328,730,278 - 28,811,615 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11328,730,192 - 28,811,584 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21331,679,196 - 31,716,731 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LIMD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1227,065,666 - 7,151,607 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl227,065,698 - 7,147,420 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041160,014,791 - 160,100,963 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Limd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473075,176,717 - 75,219,314 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473075,176,978 - 75,218,606 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000022261   ⟹   ENSCLAP00000022057
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542026,291,529 - 26,328,637 (-)Ensembl
RefSeq Acc Id: XM_005383471   ⟹   XP_005383528
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542026,290,792 - 26,328,637 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005383528 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000022057
  ENSCLAP00000022057.1
Reference Protein Sequences
RefSeq Acc Id: XP_005383528   ⟸   XM_005383471
- UniProtKB: A0A8C2W2E9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000022057   ⟸   ENSCLAT00000022261
Protein Domains
LIM zinc-binding


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000015112 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000022261 ENTREZGENE
  ENSCLAT00000022261.1 UniProtKB/TrEMBL
Gene3D-CATH Cysteine Rich Protein UniProtKB/TrEMBL
InterPro Ajuba-like UniProtKB/TrEMBL
  Ajuba-like_LIM1 UniProtKB/TrEMBL
  Ajuba-like_LIM2 UniProtKB/TrEMBL
  Ajuba-like_LIM3 UniProtKB/TrEMBL
  Znf_LIM UniProtKB/TrEMBL
NCBI Gene Limd1 ENTREZGENE
PANTHER LIM DOMAIN-CONTAINING PROTEIN JUB UniProtKB/TrEMBL
  PTHR24219:SF3 UniProtKB/TrEMBL
Pfam LIM UniProtKB/TrEMBL
PROSITE LIM_DOMAIN_1 UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/TrEMBL
SMART LIM UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/TrEMBL
UniProt A0A8C2W2E9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-01-12 Limd1  LIM domain containing 1  Limd1  LIM domains containing 1  Symbol and/or name change 5135510 APPROVED