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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Transcript Info
Description: Y box protein 1
Transcript Accession Transcript Name Contained in Gene Tax ID Strand Position Biotype
ENSMUST00000079644 Ybx1-001 ENSMUSG00000028639 10090 - 4:119277981-119294604 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'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENSMUST00000079644
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

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 Biotype Species E-Value Bit Score
ENST00000007699 YBX2-001 protein_coding Homo_sapiens 9.80909e-45 185
ENST00000321358 YBX1-001 protein_coding Homo_sapiens 0 2399
ENST00000332220 YBX1-004 protein_coding Homo_sapiens 0 634
ENST00000436427 YBX1-002 protein_coding Homo_sapiens 0 1849
ENST00000442962 YBX1P6-001 processed_pseudogene Homo_sapiens 0 1136
ENST00000444752 YBX1P10-001 processed_pseudogene Homo_sapiens 0 1452
ENST00000445822 YBX1P1-001 processed_pseudogene Homo_sapiens 0 1480
ENST00000467957 YBX1-003 processed_transcript Homo_sapiens 0 885
ENST00000489612 YBX1P2-001 processed_pseudogene Homo_sapiens 0 1319
ENST00000509441 YBX1P5-001 processed_pseudogene Homo_sapiens 0 318
ENST00000560358 RP11-244F12.1-001 processed_pseudogene Homo_sapiens 0 1225
ENST00000570627 YBX2-005 processed_transcript Homo_sapiens 5e-19 99
ENST00000571834 YBX2-002 retained_intron Homo_sapiens 2e-18 99
ENST00000605472 RP11-451F14.1-001 processed_pseudogene Homo_sapiens 0 387
ENST00000616651 YBX1-201 protein_coding Homo_sapiens 0 2263

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