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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Transcript Info
Description: homeobox A1
Transcript Accession Transcript Name Contained in Gene Tax ID Strand Position Biotype
ENSMUST00000000964 Hoxa1-001 ENSMUSG00000029844 10090 - 6:52155590-52158317 protein_coding

Mus musculus EnsemblGRCm38

Genome
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Genes
Structures from Ensembl
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Transcripts
Structures from Ensembl
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Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungOvaryPlacentaENSMUST00000000964
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Ovary Placenta
ENSMUST00000000964 0.348±0.16 0.318±0.00 0.200±0.01 0.239±0.12 0.643±0.19 0.209±0.05 0.105±0.05 0.457±0.12 0.154±0.05 0.818±0.10 0.293±0.08 0.830±0.53

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0007OD CIL_0007OD_0003 UCNEbase 6:51462736-52602127
CIL_0008JP CIL_0008JP_0002 VISTA 6:51557235-52158614
CIL_0008V2 CIL_0008V2_0002 VISTA 6:51578612-52179694
CIL_0003PD CIL_0003PD_0002 CGP 6:51859166-52158317
CIL_0008QL CIL_0008QL_0002 VISTA 6:51878169-52478777
CIL_000911 CIL_000911_0002 VISTA 6:51970433-52571615
CIL_000811 CIL_000811_0002 VISTA 6:52019082-52620287
CIL_00097P CIL_00097P_0002 VISTA 6:52142617-52744529
CIL_0003PE CIL_0003PE_0002 CGP 6:52155590-52164831

Gene Ontology

GO IDEvidence TypeGO Description
GO:0005515 IPI protein binding
GO:0005634 IEA nucleus
GO:0006351 IEA transcription, DNA-templated
GO:0006357 IDA regulation of transcription from RNA polymerase II promoter
GO:0007399 IMP nervous system development
GO:0007605 IEA sensory perception of sound
GO:0007634 IEA optokinetic behavior
GO:0008045 IGI motor neuron axon guidance
GO:0009653 IGI anatomical structure morphogenesis
GO:0009952 IGI anterior/posterior pattern specification
GO:0021569 IGI rhombomere 3 development
GO:0021570 IGI rhombomere 4 development
GO:0021571 IGI rhombomere 5 development
GO:0021599 IEA abducens nerve formation
GO:0021612 IGI facial nerve structural organization
GO:0021754 IMP facial nucleus development
GO:0021953 IMP central nervous system neuron differentiation
GO:0030902 IMP hindbrain development
GO:0042472 IMP inner ear morphogenesis
GO:0042473 IEA outer ear morphogenesis
GO:0043565 IEA sequence-specific DNA binding
GO:0045944 IDA positive regulation of transcription from RNA polymerase II promoter
GO:0048646 IGI anatomical structure formation involved in morphogenesis
GO:0048702 IEA embryonic neurocranium morphogenesis
GO:0048839 IEA inner ear development
GO:0048844 IEA artery morphogenesis
GO:0050795 IEA regulation of behavior
GO:0050890 IEA cognition
GO:0050905 IEA neuromuscular process
GO:0060840 IEA artery development
GO:0060876 IEA semicircular canal formation
GO:0071300 IDA cellular response to retinoic acid
GO:0090102 IEA cochlea development
GO:0090103 IEA cochlea morphogenesis

Homologs

ENSEMBL Accession Gene Name Biotype Species E-Value Bit Score
ENSDART00000136415 hoxb1b-001 protein_coding Danio_rerio 1.4013e-45 189
ENST00000317201 HOXA3-002 protein_coding Homo_sapiens 8e-18 97
ENST00000343060 HOXA1-001 protein_coding Homo_sapiens 0 2028
ENST00000355633 HOXA1-002 protein_coding Homo_sapiens 0 1190
ENST00000396352 HOXA3-001 protein_coding Homo_sapiens 1e-17 97
ENST00000612286 HOXA3-201 protein_coding Homo_sapiens 1e-17 97

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