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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: Y box binding protein 3
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSG00000060138 YBX3 9606 - 12:10699089-10723312 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENST00000228251 YBX3-001 10699213-10723312 protein_coding
  ENST00000279550 YBX3-003 10699089-10723307 protein_coding
  ENST00000366286 YBX3-015 10699610-10702642 processed_transcript
  ENST00000366290 YBX3-018 10701254-10702371 retained_intron
  ENST00000536107 YBX3-006 10717808-10722909 retained_intron
  ENST00000536823 YBX3-016 10699478-10704438 retained_intron
  ENST00000539204 YBX3-007 10704023-10718430 processed_transcript
  ENST00000540447 YBX3-002 10699227-10722911 retained_intron
  ENST00000540747 YBX3-004 10718117-10722396 processed_transcript
  ENST00000540975 YBX3-017 10699317-10702475 processed_transcript
  ENST00000541351 YBX3-014 10701275-10710714 nonsense_mediated_decay
  ENST00000542002 YBX3-010 10701253-10716148 retained_intron
  ENST00000542641 YBX3-008 10701274-10718115 retained_intron
  ENST00000544501 YBX3-009 10715695-10718114 processed_transcript
  ENST00000544504 YBX3-013 10702010-10710686 processed_transcript
  ENST00000544622 YBX3-012 10710351-10718121 processed_transcript
  ENST00000546164 YBX3-011 10699427-10710120 processed_transcript
  ENST00000546298 YBX3-005 10713229-10722046 processed_transcript

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENST00000228251ENST00000279550ENST00000539204ENST00000540447ENST00000540975ENST00000542002ENST00000542641ENST00000546164ENST00000546298
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENST00000228251 105.390±0.00 43.414±0.00 N/A 11.609±0.00 66.921±0.00 161.735±0.00 61.495±58.27 49.098±0.00 4.198±1.50 168.891±0.00 785.777±724.78 50.619±2.03 45.439±13.84 180.078±10.55
ENST00000279550 107.956±0.00 67.943±0.00 N/A 0.514±0.00 48.082±36.38 64.421±57.51 77.272±69.83 52.013±0.00 6.787±0.00 181.275±0.00 1822.722±1715.09 40.364±25.33 31.778±11.37 135.488±0.00
ENST00000539204 N/A N/A N/A 1.440±0.00 26.657±0.00 N/A 11.140±0.00 N/A 18.313±0.00 N/A 280.519±0.00 22.159±0.00 N/A N/A
ENST00000540447 N/A N/A 0.650±0.00 0.558±0.43 N/A 2.357±0.00 0.856±0.00 N/A 2.861±0.00 3.530±0.00 N/A 3.693±1.44 N/A N/A
ENST00000540975 N/A N/A 4.153±0.00 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A
ENST00000542002 N/A N/A N/A N/A N/A 6.123±0.00 N/A N/A 11.146±0.00 N/A N/A 10.918±0.00 N/A N/A
ENST00000542641 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 146.290±0.00 82.893±0.00 408.964±0.00
ENST00000546164 102.818±0.00 73.927±0.00 N/A N/A N/A N/A N/A 1.554±0.00 4.485±0.00 169.764±0.00 N/A N/A N/A N/A
ENST00000546298 N/A N/A N/A N/A N/A N/A N/A 2.030±0.00 N/A N/A N/A 60.953±0.00 52.900±0.00 317.594±0.00

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0000K7 CIL_0000K7_0001 CGP 12:10618939-10723312

Gene Ontology
GO IDEvidence TypeGO Description
GO:0000122 IEA negative regulation of transcription from RNA polymerase II promoter
GO:0000977 IEA RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001227 IEA RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription
GO:0001701 IEA in utero embryonic development
GO:0003676 IEA nucleic acid binding
GO:0003677 IEA DNA binding
GO:0003690 TAS double-stranded DNA binding
GO:0003697 IEA single-stranded DNA binding
GO:0003700 NAS sequence-specific DNA binding transcription factor activity
GO:0003714 TAS transcription corepressor activity
GO:0003730 ISS mRNA 3'-UTR binding
GO:0005515 IEA protein binding
GO:0005634 ISS nucleus
GO:0005737 IDA cytoplasm
GO:0005844 IEA polysome
GO:0005923 ISS tight junction
GO:0006351 IEA transcription, DNA-templated
GO:0006355 IEA regulation of transcription, DNA-templated
GO:0007283 IEA spermatogenesis
GO:0008584 IEA male gonad development
GO:0009409 TAS response to cold
GO:0009566 IEA fertilization
GO:0017048 ISS Rho GTPase binding
GO:0030529 IEA ribonucleoprotein complex
GO:0043066 IEA negative regulation of apoptotic process
GO:0044822 IDA poly(A) RNA binding
GO:0046622 IEA positive regulation of organ growth
GO:0048471 ISS perinuclear region of cytoplasm
GO:0048642 IEA negative regulation of skeletal muscle tissue development
GO:0060546 IMP negative regulation of necroptotic process
GO:0070935 IC 3'-UTR-mediated mRNA stabilization
GO:0071356 IMP cellular response to tumor necrosis factor
GO:0071474 IMP cellular hyperosmotic response
GO:1902219 IMP negative regulation of intrinsic apoptotic signaling pathway in response to osmotic stress
GO:2000767 ISS positive regulation of cytoplasmic translation

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSMUSG00000030189 Ybx3 Y box protein 3 protein_coding Mus_musculus

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