ENSDARG00000104815


Danio rerio

Features
Gene ID: ENSDARG00000104815
  
Biological name :lmx1ba
  
Synonyms : LIM homeobox transcription factor 1, beta a / lmx1ba
  
Possible biological names infered from orthology : LIM homeobox transcription factor 1 beta / LMX1B / O60663
  
Species: Danio rerio
  
Chr. number: 5
Strand: -1
Band:
Gene start: 5032833
Gene end: 5147336
  
Corresponding Affymetrix probe sets:
  
Cross references: Ensembl peptide - ENSDARP00000141680
Ensembl peptide - ENSDARP00000156554
Ensembl peptide - ENSDARP00000155628
Ensembl peptide - ENSDARP00000136639
NCBI entrez gene - 554361     See in Manteia.
RefSeq - NM_001025168
RefSeq Peptide - NP_001020339
swissprot - A0A0R4IL20
swissprot - A0A0R4IZG9
swissprot - Q4L1M5
swissprot - Q4VJ28
ZFIN ID - ZDB-GENE-050114-3
Ensembl - ENSDARG00000104815
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 LMX1BENSGALG00000040582Gallus gallus
 LMX1BENSG00000136944Homo sapiens
 Lmx1bENSMUSG00000038765Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
lmx1bb / LIM homeobox transcription factor 1, beta b / LMX1B* / O60663* / LIM homeobox transcription factor 1 beta*ENSDARG0000006836583
lmx1al / LIM homeobox transcription factor 1, alpha-likeENSDARG0000007791556
lmx1a / LIM homeobox transcription factor 1, alpha / Q8TE12* / Q9JKU8*ENSDARG0000002035452
lhx5 / P52889 / LIM homeobox 5 / Q9H2C1* / P61375* / LIM homeobox protein 5*ENSDARG0000005793632
lhx1a / Q90476 / LIM homeobox 1a / LHX1* / P48742* / P63006* / LIM homeobox 1* / LIM/homeobox protein Lhx1 *ENSDARG0000001401831
lhx1b / LIM homeobox 1b / LHX1* / P48742* / P63006* / LIM homeobox 1* / LIM/homeobox protein Lhx1 *ENSDARG0000000794430
lhx4 / LIM homeobox 4 / P53776* / Q969G2* / LIM/homeobox protein Lhx4 *ENSDARG0000003945829
isl2a / P53406 / ISL LIM homeobox 2a / ISL2* / Q96A47* / ISL LIM homeobox 2*ENSDARG0000000397129
isl2b / P53407 / ISL LIM homeobox 2b / ISL2* / Q9CXV0* / Q96A47* / ISL LIM homeobox 2* / Insulin enhancer protein ISL-2 *ENSDARG0000005349929
LHX3 / LIM homeobox 3 / Q9UBR4*ENSDARG0000000380328
isl1 / P53405 / ISL LIM homeobox 1 / P61371* / P61372* / Insulin enhancer protein ISL-1 *ENSDARG0000000402327
lhx2b / LIM homeobox 2bENSDARG0000003122226
lhx9 / Q1LWV4 / LIM homeobox 9 / Q9WUH2* / Q9NQ69* / LIM/homeobox protein Lhx9 *ENSDARG0000005697925
lhx8a / LIM homeobox 8a / LHX8* / O35652* / Q68G74* / LIM homeobox 8* / LIM/homeobox protein Lhx8 *ENSDARG0000000233025
lhx6 / LIM homeobox 6 / Q9R1R0* / Q9UPM6* / Mus musculus LIM homeobox protein 6 (Lhx6), transcript variant 5, mRNA.*ENSDARG0000000689625
isl1l / islet1, likeENSDARG0000002105524
si:ch211-236k19.2 / LHX6* / Q9R1R0* / Q9UPM6* / LIM homeobox 6* / Mus musculus LIM homeobox protein 6 (Lhx6), transcript variant 5, mRNA.*ENSDARG0000005216523
lhx2a / LIM homeobox 2aENSDARG0000003796423
lhx8b / LIM homeobox 8b / LHX8* / O35652* / Q68G74* / LIM homeobox 8* / LIM/homeobox protein Lhx8 *ENSDARG0000004214522
lmo4b / LIM domain only 4b / LMO4* / P61968* / P61969* / LIM domain only 4* / LIM domain transcription factor LMO4 *ENSDARG0000005474918


Protein motifs (from Interpro)
Interpro ID Name
 IPR001356  Homeobox domain
 IPR001781  Zinc finger, LIM-type
 IPR009057  Homeobox-like domain superfamily
 IPR017970  Homeobox, conserved site


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0002072 optic cup morphogenesis involved in camera-type eye development IGI
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0021592 fourth ventricle development IMP
 biological_processGO:0030902 hindbrain development IMP
 biological_processGO:0030917 midbrain-hindbrain boundary development IGI
 biological_processGO:0035775 pronephric glomerulus morphogenesis IGI
 biological_processGO:0060041 retina development in camera-type eye IGI
 biological_processGO:0061386 closure of optic fissure IGI
 biological_processGO:1905962 glutamatergic neuron differentiation IMP
 cellular_componentGO:0005634 nucleus IEA
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0043565 sequence-specific DNA binding IEA
 molecular_functionGO:0046872 metal ion binding IEA


Pathways (from Reactome)
Pathway description
No match


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 ZFA:0000008 brain brain dopaminergic neuron mislocalised , abnormal
Show

 ZFA:0000029 hindbrain hindbrain apoptotic , abnormal
Show

 ZFA:0000042 midbrain hindbrain boundary midbrain hindbrain boundary aplastic , abnormal
midbrain hindbrain boundary apoptotic , abnormal
Show

 ZFA:0000054 pericardium pericardium edematous , abnormal
Show

 ZFA:0000100 cerebellum cerebellum aplastic , abnormal
Show

 ZFA:0000101 diencephalon diencephalon has fewer parts of type dopaminergic neuron , abnormal
diencephalon dopaminergic neuron mislocalised laterally , abnormal
Show

 ZFA:0000107 eye eye decreased size , abnormal
eye ventral region disorganized , abnormal
eye ventral region apoptotic , abnormal
Show

 ZFA:0000110 fourth ventricle fourth ventricle structure , abnormal
Show

 ZFA:0000114 heart heart edematous , abnormal
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 ZFA:0000144 retinal pigmented epithelium retinal pigmented epithelium decreased thickness , abnormal
retinal pigmented epithelium disorganized , abnormal
Show

 ZFA:0000151 pronephros pronephros lacks all parts of type pronephric glomerulus , abnormal
Show

 ZFA:0000450 trochlear motor nucleus trochlear motor nucleus aplastic , abnormal
Show

 ZFA:0000553 oculomotor nucleus oculomotor nucleus aplastic , abnormal
Show

 ZFA:0001071 presumptive neural retina presumptive neural retina decreased thickness , abnormal
Show

 ZFA:0001094 whole organism whole organism edematous , abnormal
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 ZFA:0001115 trunk trunk curved , abnormal
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 ZFA:0001117 post-vent region post-vent region coiled , abnormal
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 ZFA:0001284 optic fissure optic fissure closure incomplete , abnormal
Show

 ZFA:0001557 pronephric glomerulus pronephric glomerulus cystic , abnormal
pronephric glomerulus split bilaterally , abnormal
pronephric glomerulus physical object quality , abnormal
Show

 ZFA:0005146 area postrema area postrema has fewer parts of type dopaminergic neuron , abnormal
Show

 ZFA:0005572 periocular mesenchyme periocular mesenchyme organization quality , abnormal
periocular mesenchyme apoptotic , abnormal
Show

 ZFA:0009290 glutamatergic neuron glutamatergic neuron decreased distribution , abnormal
glutamatergic neuron decreased amount , abnormal
Show

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
No match






 

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