LMO4 (LIM domain only 4) - Rat Genome Database

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Gene: LMO4 (LIM domain only 4) Sus scrofa
Analyze
Symbol: LMO4
Name: LIM domain only 4
RGD ID: 14147503
Description: ENCODES a protein that exhibits metal ion binding (inferred); INVOLVED IN negative regulation of protein-containing complex assembly (ortholog); neural tube closure (ortholog); positive regulation of kinase activity (ortholog); PARTICIPATES IN interleukin-6 signaling pathway; FOUND IN cell leading edge (ortholog); nucleus (ortholog); RNA polymerase II transcription regulator complex (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LIM domain transcription factor LMO4
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
Sscrofa11.14128,894,113 - 128,910,648 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24141,341,687 - 141,354,291 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:14681463   PMID:15679890   PMID:17145712  


Genomics

Comparative Map Data
LMO4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.14128,894,113 - 128,910,648 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24141,341,687 - 141,354,291 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LMO4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl187,328,880 - 87,348,923 (+)EnsemblGRCh38hg38GRCh38
GRCh38187,328,880 - 87,348,923 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37187,794,563 - 87,814,606 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36187,566,739 - 87,583,851 (+)NCBINCBI36hg18NCBI36
Build 34187,506,171 - 87,523,283NCBI
Celera186,039,830 - 86,060,286 (+)NCBI
Cytogenetic Map1p22.3NCBI
HuRef185,907,757 - 85,928,201 (+)NCBIHuRef
CHM1_1187,909,001 - 87,929,485 (+)NCBICHM1_1
Lmo4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393143,894,291 - 143,911,016 (-)NCBIGRCm39mm39
GRCm39 Ensembl3143,894,291 - 143,910,981 (-)Ensembl
GRCm383144,188,530 - 144,205,255 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3144,188,530 - 144,205,220 (-)EnsemblGRCm38mm10GRCm38
MGSCv373143,851,494 - 143,868,219 (-)NCBIGRCm37mm9NCBIm37
MGSCv363144,125,916 - 144,142,357 (-)NCBImm8
Celera3150,625,911 - 150,643,008 (-)NCBICelera
Cytogenetic Map3H2NCBI
cM Map368.61NCBI
Lmo4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22233,264,180 - 233,280,881 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2233,264,182 - 233,280,880 (-)Ensembl
Rnor_6.02250,218,635 - 250,235,435 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2250,218,641 - 250,241,673 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02268,752,222 - 268,769,170 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42242,498,074 - 242,515,160 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12242,484,813 - 242,501,899 (+)NCBI
Celera2225,256,943 - 225,273,636 (-)NCBICelera
Cytogenetic Map2q44NCBI
Lmo4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554236,849,555 - 6,866,137 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554236,849,542 - 6,865,928 (-)NCBIChiLan1.0ChiLan1.0
LMO4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1188,698,962 - 88,718,760 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl188,698,962 - 88,718,760 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01119,848,323 - 119,867,007 (+)NCBIMhudiblu_PPA_v0panPan3
LMO4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1660,892,478 - 60,909,910 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl660,727,270 - 60,941,058 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha663,606,359 - 63,623,679 (-)NCBI
ROS_Cfam_1.0661,432,227 - 61,449,629 (-)NCBI
UMICH_Zoey_3.1660,967,016 - 60,984,353 (-)NCBI
UNSW_CanFamBas_1.0660,923,303 - 60,940,624 (-)NCBI
UU_Cfam_GSD_1.0661,421,332 - 61,438,711 (-)NCBI
Lmo4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505897,881,311 - 97,900,916 (+)NCBI
SpeTri2.0NW_0049367321,541,511 - 1,557,845 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LMO4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12046,105,755 - 46,126,291 (-)NCBI
ChlSab1.1 Ensembl2046,105,699 - 46,126,399 (-)Ensembl
Vero_WHO_p1.0NW_02366603371,708,190 - 71,726,923 (+)NCBI
Lmo4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474210,207,901 - 10,224,807 (-)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 1 3 4 12 2 2 1
Low 9 1 3 1 2 11 1 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001112686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021088448 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021088449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB304401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AEMK02000025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK232040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK233224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK234103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK235142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK235579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK236123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK237734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK239529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK347442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK347817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK348722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK351614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK390167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK390242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK390347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK390590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK393769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK399113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY610416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU550656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01088439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: NM_001112686   ⟹   NP_001106156
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14128,894,293 - 128,907,989 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021088448   ⟹   XP_020944107
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14128,894,113 - 128,910,648 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021088449   ⟹   XP_020944108
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14128,894,113 - 128,907,789 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001106156 (Get FASTA)   NCBI Sequence Viewer  
  XP_020944107 (Get FASTA)   NCBI Sequence Viewer  
  XP_020944108 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAF93844 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020944107   ⟸   XM_021088448
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020944108   ⟸   XM_021088449
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001106156   ⟸   NM_001112686
- UniProtKB: A9ED91 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
LIM zinc-binding


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000006928 UniProtKB/TrEMBL
  ENSSSCG00000047605 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070015895 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000007387 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000039922 UniProtKB/TrEMBL
  ENSSSCP00000051274 UniProtKB/TrEMBL
  ENSSSCP00070026040 UniProtKB/TrEMBL
  ENSSSCP00070026050 UniProtKB/TrEMBL
  ENSSSCP00070026054 UniProtKB/TrEMBL
  ENSSSCP00070026057 UniProtKB/TrEMBL
  ENSSSCP00070026061 UniProtKB/TrEMBL
  ENSSSCP00070026064 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000007590 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000040333 UniProtKB/TrEMBL
  ENSSSCT00000042295 UniProtKB/TrEMBL
  ENSSSCT00070031237 UniProtKB/TrEMBL
  ENSSSCT00070031248 UniProtKB/TrEMBL
  ENSSSCT00070031252 UniProtKB/TrEMBL
  ENSSSCT00070031257 UniProtKB/TrEMBL
  ENSSSCT00070031259 UniProtKB/TrEMBL
  ENSSSCT00070031262 UniProtKB/TrEMBL
InterPro Znf_LIM UniProtKB/TrEMBL
KEGG Report ssc:100127155 UniProtKB/TrEMBL
NCBI Gene LMO4 ENTREZGENE
Pfam LIM UniProtKB/TrEMBL
PROSITE LIM_DOMAIN_1 UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/TrEMBL
SMART LIM UniProtKB/TrEMBL
UniProt A0A287A7K1_PIG UniProtKB/TrEMBL
  A0A287B4Q7_PIG UniProtKB/TrEMBL
  A0A4X1UD97_PIG UniProtKB/TrEMBL
  A0A4X1UDA8_PIG UniProtKB/TrEMBL
  A0A4X1UDT2_PIG UniProtKB/TrEMBL
  A0A4X1UDU1_PIG UniProtKB/TrEMBL
  A9ED91 ENTREZGENE, UniProtKB/TrEMBL