LIMA1 (LIM domain and actin binding 1) - Rat Genome Database

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Gene: LIMA1 (LIM domain and actin binding 1) Sus scrofa
Analyze
Symbol: LIMA1
Name: LIM domain and actin binding 1
RGD ID: 14021974
Description: ENCODES a protein that exhibits actin filament binding (inferred); actin monomer binding (inferred); metal ion binding (inferred); INVOLVED IN cell migration (ortholog); cholesterol homeostasis (ortholog); intestinal cholesterol absorption (ortholog); PARTICIPATES IN E-cadherin signaling pathway; FOUND IN actin cytoskeleton (ortholog); brush border (ortholog); brush border membrane (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Epithelial protein lost in neoplasm; EPLIN; EPLIN-b; LIM domain and actin-binding protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl516,074,436 - 16,177,104 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1516,074,436 - 16,177,122 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2516,487,730 - 16,492,647 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
actin cytoskeleton  (IBA,ISO)
brush border  (ISO)
brush border membrane  (IEA,ISS)
cleavage furrow  (IEA,ISS)
cytoplasm  (IEA)
cytosol  (IEA)
focal adhesion  (IEA,ISS)
plasma membrane  (IBA,ISO)
ruffle  (IEA,ISS)
stress fiber  (IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:17453649  


Genomics

Comparative Map Data
LIMA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl516,074,436 - 16,177,104 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1516,074,436 - 16,177,122 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2516,487,730 - 16,492,647 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LIMA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1250,175,788 - 50,283,546 (-)EnsemblGRCh38hg38GRCh38
GRCh381250,175,780 - 50,283,520 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371250,569,563 - 50,677,303 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361248,855,838 - 48,963,539 (-)NCBINCBI36hg18NCBI36
Celera1249,365,319 - 49,473,110 (-)NCBI
Cytogenetic Map12q13.12NCBI
HuRef1247,602,746 - 47,710,458 (-)NCBIHuRef
CHM1_11250,535,584 - 50,643,310 (-)NCBICHM1_1
Lima1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391599,676,349 - 99,773,371 (-)NCBIGRCm39mm39
GRCm39 Ensembl1599,676,351 - 99,773,337 (-)Ensembl
GRCm381599,778,468 - 99,875,477 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1599,778,470 - 99,875,456 (-)EnsemblGRCm38mm10GRCm38
MGSCv371599,608,899 - 99,705,887 (-)NCBIGRCm37mm9NCBIm37
MGSCv361599,606,542 - 99,648,106 (-)NCBImm8
Celera15101,933,926 - 102,030,215 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1556.13NCBI
Lima1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27130,901,717 - 131,001,573 (-)NCBI
Rnor_6.0 Ensembl7141,428,063 - 141,528,397 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07141,428,113 - 141,528,447 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X115,932,904 - 116,035,032 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,519,353 - 138,617,856 (-)NCBIRGSC3.4rn4RGSC3.4
Celera7127,383,104 - 127,448,452 (-)NCBICelera
Cytogenetic Map7q36NCBI
Lima1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955547730,073 - 827,783 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955547730,152 - 827,644 (-)NCBIChiLan1.0ChiLan1.0
LIMA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11239,370,497 - 39,476,142 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1239,399,611 - 39,476,142 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01238,473,223 - 38,580,511 (+)NCBIMhudiblu_PPA_v0panPan3
LIMA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1274,473,151 - 4,561,916 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl274,473,179 - 4,561,574 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2741,696,216 - 41,784,478 (-)NCBI
ROS_Cfam_1.0274,521,775 - 4,611,296 (+)NCBI
UMICH_Zoey_3.1274,487,057 - 4,576,041 (+)NCBI
UNSW_CanFamBas_1.0274,476,006 - 4,565,713 (+)NCBI
UU_Cfam_GSD_1.02742,091,081 - 42,179,519 (-)NCBI
Lima1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494565,312,989 - 65,351,458 (+)NCBI
SpeTri2.0NW_0049365127,812,856 - 7,851,859 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LIMA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11146,403,808 - 46,508,278 (-)NCBI
ChlSab1.1 Ensembl1146,403,826 - 46,508,249 (-)Ensembl
Lima1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248162,052,575 - 2,146,485 (+)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 8 2 2 2
Low 2 4 3 5 2 23 1 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001114676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090869 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090870 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090871 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090874 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021090879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY705920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ364062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ364063 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FP565371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01003488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000048726   ⟹   ENSSSCP00000038082
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl516,074,436 - 16,177,104 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000051991   ⟹   ENSSSCP00000042877
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl516,074,441 - 16,177,104 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000085569   ⟹   ENSSSCP00000060135
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl516,074,445 - 16,177,038 (-)Ensembl
RefSeq Acc Id: NM_001114676   ⟹   NP_001108148
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,440 - 16,177,042 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090869   ⟹   XP_020946528
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,177,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090870   ⟹   XP_020946529
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,177,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090871   ⟹   XP_020946530
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,151,868 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090873   ⟹   XP_020946532
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,177,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090874   ⟹   XP_020946533
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,439 - 16,177,122 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090875   ⟹   XP_020946534
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,439 - 16,177,102 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090876   ⟹   XP_020946535
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,177,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090877   ⟹   XP_020946536
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,177,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090878   ⟹   XP_020946537
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,151,862 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090879   ⟹   XP_020946538
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1516,074,436 - 16,177,101 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_020946538   ⟸   XM_021090879
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_020946535   ⟸   XM_021090876
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_020946532   ⟸   XM_021090873
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020946528   ⟸   XM_021090869
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020946536   ⟸   XM_021090877
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_020946529   ⟸   XM_021090870
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020946530   ⟸   XM_021090871
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020946537   ⟸   XM_021090878
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_020946533   ⟸   XM_021090874
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_020946534   ⟸   XM_021090875
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: NP_001108148   ⟸   NM_001114676
- UniProtKB: B0KYV5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSSSCP00000038082   ⟸   ENSSSCT00000048726
RefSeq Acc Id: ENSSSCP00000042877   ⟸   ENSSSCT00000051991
RefSeq Acc Id: ENSSSCP00000060135   ⟸   ENSSSCT00000085569
Protein Domains
LIM zinc-binding


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000032269 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070030443 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000038082 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000042877 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000060135 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070052227 UniProtKB/TrEMBL
  ENSSSCP00070052229 UniProtKB/TrEMBL
  ENSSSCP00070052230 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000048726 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000051991 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000085569 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070061277 UniProtKB/TrEMBL
  ENSSSCT00070061279 UniProtKB/TrEMBL
  ENSSSCT00070061280 UniProtKB/TrEMBL
InterPro EPLIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report ssc:100137084 UniProtKB/Swiss-Prot
NCBI Gene LIMA1 ENTREZGENE
PANTHER PTHR24206:SF57 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A287A2U9_PIG UniProtKB/TrEMBL
  A0A287AGB6_PIG UniProtKB/TrEMBL
  A0A4X1WCG5_PIG UniProtKB/TrEMBL
  A0A4X1WCP2_PIG UniProtKB/TrEMBL
  A0A4X1WDP7_PIG UniProtKB/TrEMBL
  A0A5G2QDK2_PIG UniProtKB/TrEMBL
  B0KYV5 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary B0KYV6 UniProtKB/Swiss-Prot
VGNC ID VGNC:98070 ENTREZGENE