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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: Y box protein 1
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSMUSG00000028639 Ybx1 10090 - 4:119277981-119294604 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENSMUST00000079644 Ybx1-001 119277981-119294604 protein_coding
  ENSMUST00000127737 Ybx1-004 119277990-119282792 protein_coding
  ENSMUST00000139897 Ybx1-003 119282273-119294490 processed_transcript
  ENSMUST00000142884 Ybx1-005 119285002-119294480 processed_transcript
  ENSMUST00000144992 Ybx1-006 119281143-119282186 processed_transcript
  ENSMUST00000145976 Ybx1-007 119278167-119279450 processed_transcript
  ENSMUST00000152733 Ybx1-002 119293624-119294500 processed_transcript

Mus musculus EnsemblGRCm38

Genome
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Genes
Gene structures from Ensembl
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Transcripts
Structures from Ensembl
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Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENSMUST00000079644ENSMUST00000127737ENSMUST00000139897ENSMUST00000145976ENSMUST00000152733
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENSMUST00000079644 89.224±10.94 27.874±3.60 108.886±17.62 193.854±106.00 64.752±11.96 86.281±9.66 144.720±4.68 112.674±12.44 90.349±80.09 94.982±10.40 295.840±7.64 173.750±114.71 164.114±91.93 306.173±213.87
ENSMUST00000127737 N/A N/A N/A N/A N/A N/A N/A 25.500±0.00 9.935±1.50 N/A N/A 71.137±0.00 44.317±27.25 118.222±16.52
ENSMUST00000139897 N/A 52.291±9.34 N/A N/A N/A N/A N/A N/A N/A N/A N/A 66.831±21.88 N/A N/A
ENSMUST00000145976 N/A N/A N/A 107.571±0.00 N/A N/A N/A N/A N/A N/A N/A 377.114±0.00 228.881±93.99 330.518±0.00
ENSMUST00000152733 N/A 13.032±0.00 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0008N2 CIL_0008N2_0002 VISTA 4:118719151-119320076
CIL_0008PM CIL_0008PM_0002 VISTA 4:118938785-119540197
CIL_0002SI CIL_0002SI_0002 CGP 4:119277981-119320546

Gene Ontology
GO IDEvidence TypeGO Description
GO:0000122 IDA negative regulation of transcription from RNA polymerase II promoter
GO:0001701 IGI in utero embryonic development
GO:0003697 IDA single-stranded DNA binding
GO:0003723 ISS RNA binding
GO:0005515 IPI protein binding
GO:0005634 IGI nucleus
GO:0005689 IEA U12-type spliceosomal complex
GO:0005737 IDA cytoplasm
GO:0006351 IEA transcription, DNA-templated
GO:0006355 ISS regulation of transcription, DNA-templated
GO:0006397 IEA mRNA processing
GO:0008380 IEA RNA splicing
GO:0010494 ISS cytoplasmic stress granule
GO:0030529 ISS ribonucleoprotein complex
GO:0031965 IEA nuclear membrane
GO:0043231 IEA intracellular membrane-bounded organelle
GO:0044822 IEA poly(A) RNA binding
GO:0051154 IDA negative regulation of striated muscle cell differentiation
GO:0051781 IEA positive regulation of cell division
GO:0070062 IEA extracellular vesicular exosome
GO:0070934 ISS CRD-mediated mRNA stabilization
GO:0070937 IEA CRD-mediated mRNA stability complex
GO:0071204 IDA histone pre-mRNA 3'end processing complex

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000004757 ybx1 Y box binding protein 1 protein_coding Danio_rerio
ENSG00000065978 YBX1 Y box binding protein 1 protein_coding Homo_sapiens

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