C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: LIM domain only 4
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSMUSG00000028266 Lmo4 10090 - 3:144188530-144205220 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENSMUST00000120539 Lmo4-001 144188530-144205220 protein_coding
  ENSMUST00000121112 Lmo4-003 144188632-144202332 protein_coding
  ENSMUST00000121796 Lmo4-002 144188530-144202317 protein_coding
  ENSMUST00000124891 Lmo4-006 144201623-144202300 retained_intron
  ENSMUST00000134961 Lmo4-004 144200783-144205180 retained_intron
  ENSMUST00000148128 Lmo4-005 144189062-144194818 retained_intron

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENSMUST00000120539ENSMUST00000121112ENSMUST00000121796ENSMUST00000148128
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENSMUST00000120539 19.553±7.55 35.040±6.58 54.415±0.00 19.649±6.43 15.750±5.84 11.277±1.47 3.536±1.00 13.602±4.02 5.800±5.18 12.496±1.22 5.350±1.42 19.151±6.16 4.006±3.38 1.431±0.76
ENSMUST00000121112 N/A N/A N/A 6.490±0.00 13.199±0.00 N/A 3.361±0.00 N/A N/A 5.887±0.73 3.039±0.45 3.776±2.06 1.043±0.17 N/A
ENSMUST00000121796 48.538±22.92 46.103±9.65 57.334±0.00 16.284±8.05 35.879±5.57 13.500±3.35 12.799±2.44 40.969±4.19 6.121±1.39 30.711±5.64 3.325±1.92 24.258±6.42 4.531±1.97 4.126±1.88
ENSMUST00000148128 N/A N/A N/A N/A 10.593±0.00 N/A N/A N/A N/A N/A N/A 12.248±0.15 3.990±0.00 N/A

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0007N8 CIL_0007N8_0002 UCNEbase 3:143101318-144382743
CIL_0007QF CIL_0007QF_0002 VISTA 3:143613930-144215288
CIL_00094A CIL_00094A_0002 VISTA 3:143646946-144248485
CIL_00093Y CIL_00093Y_0002 VISTA 3:143682651-144283371
CIL_0007XS CIL_0007XS_0002 VISTA 3:143685055-144286394
CIL_0008DM CIL_0008DM_0002 VISTA 3:143873688-144475123
CIL_00093Z CIL_00093Z_0002 VISTA 3:143873814-144474949
CIL_0008FW CIL_0008FW_0002 VISTA 3:143894509-144496427
CIL_0008P2 CIL_0008P2_0002 VISTA 3:143903013-144504545
CIL_0000F7 CIL_0000F7_0002 CGP 3:144188530-144570181

Gene Ontology
GO IDEvidence TypeGO Description
GO:0001158 IDA enhancer sequence-specific DNA binding
GO:0001843 IMP neural tube closure
GO:0003281 IMP ventricular septum development
GO:0005515 IPI protein binding
GO:0005667 IDA transcription factor complex
GO:0006366 IDA transcription from RNA polymerase II promoter
GO:0008134 IDA transcription factor binding
GO:0008270 IEA zinc ion binding
GO:0021514 IDA ventral spinal cord interneuron differentiation
GO:0021522 IDA spinal cord motor neuron differentiation
GO:0021527 IGI spinal cord association neuron differentiation
GO:0031333 IDA negative regulation of protein complex assembly
GO:0042659 IMP regulation of cell fate specification
GO:0045944 IGI positive regulation of transcription from RNA polymerase II promoter
GO:0048538 IGI thymus development
GO:0050865 IMP regulation of cell activation

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000054749 lmo4b LIM domain only 4b protein_coding Danio_rerio
ENSG00000143013 LMO4 LIM domain only 4 protein_coding Homo_sapiens

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