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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: high mobility group box 1
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSG00000189403 HMGB1 9606 - 13:30456704-30617597 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENST00000326004 HMGB1-003 30461496-30465938 protein_coding
  ENST00000339872 HMGB1-001 30459850-30464310 protein_coding
  ENST00000341423 HMGB1-004 30456704-30465965 protein_coding
  ENST00000399489 HMGB1-009 30460895-30464247 protein_coding
  ENST00000399494 HMGB1-011 30460907-30465242 protein_coding
  ENST00000405805 HMGB1-012 30458747-30617597 protein_coding
  ENST00000468384 HMGB1-007 30463311-30465914 processed_transcript
  ENST00000490788 HMGB1-008 30462346-30463264 processed_transcript

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENST00000326004ENST00000339872ENST00000341423ENST00000399489ENST00000399494ENST00000405805ENST00000468384
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENST00000326004 35.635±0.00 N/A 15.953±0.00 32.139±0.00 44.253±0.00 42.145±8.27 2.961±0.00 43.133±0.00 40.134±0.00 34.822±0.00 12.561±0.00 84.285±24.50 28.551±8.96 27.046±12.90
ENST00000339872 30.004±0.00 37.161±0.00 N/A 16.684±12.79 20.276±12.07 47.682±0.00 10.755±9.24 23.703±15.15 11.489±6.26 28.130±22.57 7.900±6.30 27.121±20.89 17.824±7.73 17.720±15.78
ENST00000341423 6.360±0.00 10.057±0.00 N/A 5.479±0.00 3.395±1.22 N/A 1.732±0.00 4.826±0.00 2.533±0.00 N/A 1.773±0.00 2.721±0.00 N/A 3.251±0.00
ENST00000399489 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 2.900±0.00
ENST00000399494 N/A N/A N/A 25.890±0.00 N/A 29.699±0.00 N/A N/A N/A N/A N/A 39.919±21.32 21.621±9.46 14.544±11.59
ENST00000405805 6.188±0.00 N/A 1.619±0.00 6.254±0.00 5.494±0.00 N/A 1.808±0.92 2.920±0.00 4.426±0.00 6.024±0.94 2.368±1.37 5.851±1.32 N/A 1.491±0.00
ENST00000468384 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 149.717±0.00 48.529±0.00 12.604±0.00

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0004CF CIL_0004CF_0001 CGP 13:30456704-30660770

Gene Ontology
GO IDEvidence TypeGO Description
GO:0000122 IMP negative regulation of transcription from RNA polymerase II promoter
GO:0000793 IDA condensed chromosome
GO:0001773 ISS myeloid dendritic cell activation
GO:0002407 ISS dendritic cell chemotaxis
GO:0002437 IEP inflammatory response to antigenic stimulus
GO:0003677 IEA DNA binding
GO:0003684 ISS damaged DNA binding
GO:0003690 ISS double-stranded DNA binding
GO:0003697 ISS single-stranded DNA binding
GO:0003700 IDA sequence-specific DNA binding transcription factor activity
GO:0005125 ISS cytokine activity
GO:0005515 IPI protein binding
GO:0005576 TAS extracellular region
GO:0005615 IDA extracellular space
GO:0005634 IEA nucleus
GO:0005654 TAS nucleoplasm
GO:0006265 ISS DNA topological change
GO:0006288 IDA base-excision repair, DNA ligation
GO:0006309 TAS apoptotic DNA fragmentation
GO:0006310 ISS DNA recombination
GO:0006357 IDA regulation of transcription from RNA polymerase II promoter
GO:0006915 TAS apoptotic process
GO:0006921 TAS cellular component disassembly involved in execution phase of apoptosis
GO:0008134 IPI transcription factor binding
GO:0008301 ISS DNA binding, bending
GO:0009986 IDA cell surface
GO:0017053 IDA transcriptional repressor complex
GO:0017055 IDA negative regulation of RNA polymerase II transcriptional preinitiation complex assembly
GO:0031175 ISS neuron projection development
GO:0033151 IDA V(D)J recombination
GO:0042056 ISS chemoattractant activity
GO:0043065 IDA positive regulation of apoptotic process
GO:0043280 IDA positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043388 IDA positive regulation of DNA binding
GO:0044822 IDA poly(A) RNA binding
GO:0045087 TAS innate immune response
GO:0045944 IDA positive regulation of transcription from RNA polymerase II promoter
GO:0050786 ISS RAGE receptor binding
GO:0050918 ISS positive chemotaxis
GO:0051103 ISS DNA ligation involved in DNA repair
GO:0070491 IPI repressing transcription factor binding
GO:2000426 IEA negative regulation of apoptotic cell clearance

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000030479 hmgb1b high-mobility group box 1b protein_coding Danio_rerio
ENSDARG00000079772 hmgb1a high-mobility group box 1a protein_coding Danio_rerio
ENSMUSG00000066551 Hmgb1 high mobility group box 1 protein_coding Mus_musculus

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