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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Transcript Info
Description: sonic hedgehog
Transcript Accession Transcript Name Contained in Gene Tax ID Strand Position Biotype
ENSMUST00000002708 Shh-001 ENSMUSG00000002633 10090 - 5:28456815-28467101 protein_coding

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainColonKidneyLiverLungMuscleOvaryPlacentaTestisENSMUST00000002708
Transcript ID Adipose Adrenal Bladder Brain Colon Kidney Liver Lung Muscle Ovary Placenta Testis
ENSMUST00000002708 0.109±0.07 11.250±6.24 31.060±2.27 1.155±0.43 0.322±0.06 0.382±0.03 0.024±0.01 2.459±1.27 0.021±0.00 0.040±0.02 0.078±0.09 0.123±0.14

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0008KT CIL_0008KT_0002 VISTA 5:27878923-28480422
CIL_000962 CIL_000962_0002 VISTA 5:28103755-28704882
CIL_0006DC CIL_0006DC_0003 CGP 5:28317121-28467101
CIL_00026H CIL_00026H_0002 CGP 5:28456815-29225524

Gene Ontology

GO IDEvidence TypeGO Description
GO:0000122 IMP negative regulation of transcription from RNA polymerase II promoter
GO:0001525 IDA angiogenesis
GO:0001569 IMP patterning of blood vessels
GO:0001570 IDA vasculogenesis
GO:0001656 IMP metanephros development
GO:0001658 IMP branching involved in ureteric bud morphogenesis
GO:0001708 IMP cell fate specification
GO:0001755 IMP neural crest cell migration
GO:0001822 IMP kidney development
GO:0001942 IMP hair follicle development
GO:0001944 IMP vasculature development
GO:0001947 IMP heart looping
GO:0001948 IDA glycoprotein binding
GO:0002052 IDA positive regulation of neuroblast proliferation
GO:0002053 IMP positive regulation of mesenchymal cell proliferation
GO:0002076 IDA osteoblast development
GO:0002320 IMP lymphoid progenitor cell differentiation
GO:0003140 IMP determination of left/right asymmetry in lateral mesoderm
GO:0005113 IPI patched binding
GO:0005509 ISS calcium ion binding
GO:0005515 IPI protein binding
GO:0005539 IDA glycosaminoglycan binding
GO:0005615 IDA extracellular space
GO:0005634 IDA nucleus
GO:0005886 IEA plasma membrane
GO:0006355 IMP regulation of transcription, DNA-templated
GO:0006508 IEA proteolysis
GO:0006897 IDA endocytosis
GO:0006915 IGI apoptotic process
GO:0007165 TAS signal transduction
GO:0007224 IMP smoothened signaling pathway
GO:0007228 IMP positive regulation of hh target transcription factor activity
GO:0007267 IMP cell-cell signaling
GO:0007368 IMP determination of left/right symmetry
GO:0007389 IMP pattern specification process
GO:0007398 IMP ectoderm development
GO:0007405 IDA neuroblast proliferation
GO:0007411 IDA axon guidance
GO:0007417 IMP central nervous system development
GO:0007442 IMP hindgut morphogenesis
GO:0007507 IMP heart development
GO:0007596 IMP blood coagulation
GO:0008209 IMP androgen metabolic process
GO:0008270 ISS zinc ion binding
GO:0008283 IGI cell proliferation
GO:0008284 IDA positive regulation of cell proliferation
GO:0009949 IMP polarity specification of anterior/posterior axis
GO:0009952 IMP anterior/posterior pattern specification
GO:0009953 IGI dorsal/ventral pattern formation
GO:0009986 IDA cell surface
GO:0010463 IMP mesenchymal cell proliferation
GO:0010468 ISO regulation of gene expression
GO:0010628 IMP positive regulation of gene expression
GO:0010629 IMP negative regulation of gene expression
GO:0014003 IDA oligodendrocyte development
GO:0014706 IMP striated muscle tissue development
GO:0014858 IMP positive regulation of skeletal muscle cell proliferation
GO:0014902 IMP myotube differentiation
GO:0016020 IDA membrane
GO:0016539 IEA intein-mediated protein splicing
GO:0021513 IMP spinal cord dorsal/ventral patterning
GO:0021522 IGI spinal cord motor neuron differentiation
GO:0021794 IGI thalamus development
GO:0021904 IDA dorsal/ventral neural tube patterning
GO:0021930 IGI cerebellar granule cell precursor proliferation
GO:0021938 IDA smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation
GO:0021940 IDA positive regulation of cerebellar granule cell precursor proliferation
GO:0021978 IMP telencephalon regionalization
GO:0030010 IDA establishment of cell polarity
GO:0030162 IDA regulation of proteolysis
GO:0030177 IMP positive regulation of Wnt signaling pathway
GO:0030178 IDA negative regulation of Wnt signaling pathway
GO:0030323 IMP respiratory tube development
GO:0030324 IGI lung development
GO:0030326 IGI embryonic limb morphogenesis
GO:0030336 IDA negative regulation of cell migration
GO:0030539 IMP male genitalia development
GO:0030850 IMP prostate gland development
GO:0030878 IMP thyroid gland development
GO:0030900 IGI forebrain development
GO:0030901 IGI midbrain development
GO:0030902 IMP hindbrain development
GO:0031012 IDA extracellular matrix
GO:0031016 IMP pancreas development
GO:0031069 IMP hair follicle morphogenesis
GO:0032435 IMP negative regulation of proteasomal ubiquitin-dependent protein catabolic process
GO:0033077 IMP T cell differentiation in thymus
GO:0033089 IMP positive regulation of T cell differentiation in thymus
GO:0033092 IMP positive regulation of immature T cell proliferation in thymus
GO:0034244 IDA negative regulation of transcription elongation from RNA polymerase II promoter
GO:0034504 IDA protein localization to nucleus
GO:0035115 IMP embryonic forelimb morphogenesis
GO:0035116 IMP embryonic hindlimb morphogenesis
GO:0042127 IDA regulation of cell proliferation
GO:0042130 IMP negative regulation of T cell proliferation
GO:0042177 IMP negative regulation of protein catabolic process
GO:0042307 IGI positive regulation of protein import into nucleus
GO:0042475 IMP odontogenesis of dentin-containing tooth
GO:0042476 IDA odontogenesis
GO:0042481 IMP regulation of odontogenesis
GO:0042733 IMP embryonic digit morphogenesis
GO:0043010 IDA camera-type eye development
GO:0043066 IDA negative regulation of apoptotic process
GO:0043237 IDA laminin-1 binding
GO:0043369 IMP CD4-positive or CD8-positive, alpha-beta T cell lineage commitment
GO:0043588 IMP skin development
GO:0045059 IMP positive thymic T cell selection
GO:0045060 IMP negative thymic T cell selection
GO:0045109 IMP intermediate filament organization
GO:0045121 IDA membrane raft
GO:0045165 IGI cell fate commitment
GO:0045445 IDA myoblast differentiation
GO:0045596 IDA negative regulation of cell differentiation
GO:0045597 IMP positive regulation of cell differentiation
GO:0045880 ISS positive regulation of smoothened signaling pathway
GO:0045893 IDA positive regulation of transcription, DNA-templated
GO:0045944 IGI positive regulation of transcription from RNA polymerase II promoter
GO:0046638 IMP positive regulation of alpha-beta T cell differentiation
GO:0046639 IMP negative regulation of alpha-beta T cell differentiation
GO:0048468 IMP cell development
GO:0048538 IMP thymus development
GO:0048546 IMP digestive tract morphogenesis
GO:0048557 IMP embryonic digestive tract morphogenesis
GO:0048568 IMP embryonic organ development
GO:0048589 IMP developmental growth
GO:0048598 IMP embryonic morphogenesis
GO:0048617 IMP embryonic foregut morphogenesis
GO:0048643 IMP positive regulation of skeletal muscle tissue development
GO:0048645 IMP organ formation
GO:0048646 IMP anatomical structure formation involved in morphogenesis
GO:0048663 IMP neuron fate commitment
GO:0048706 IGI embryonic skeletal system development
GO:0048709 IGI oligodendrocyte differentiation
GO:0048714 IDA positive regulation of oligodendrocyte differentiation
GO:0048754 IMP branching morphogenesis of an epithelial tube
GO:0048839 IGI inner ear development
GO:0048856 IMP anatomical structure development
GO:0048859 IMP formation of anatomical boundary
GO:0048864 IMP stem cell development
GO:0051146 IDA striated muscle cell differentiation
GO:0051155 IMP positive regulation of striated muscle cell differentiation
GO:0051781 IEA positive regulation of cell division
GO:0060020 IDA Bergmann glial cell differentiation
GO:0060021 IMP palate development
GO:0060070 IDA canonical Wnt signaling pathway
GO:0060173 IGI limb development
GO:0060174 IMP limb bud formation
GO:0060425 IMP lung morphogenesis
GO:0060428 IMP lung epithelium development
GO:0060438 IMP trachea development
GO:0060439 IMP trachea morphogenesis
GO:0060441 IMP epithelial tube branching involved in lung morphogenesis
GO:0060442 IDA branching involved in prostate gland morphogenesis
GO:0060445 IGI branching involved in salivary gland morphogenesis
GO:0060447 IMP bud outgrowth involved in lung branching
GO:0060458 IMP right lung development
GO:0060459 IMP left lung development
GO:0060463 IMP lung lobe morphogenesis
GO:0060484 IMP lung-associated mesenchyme development
GO:0060516 IDA primary prostatic bud elongation
GO:0060523 IDA prostate epithelial cord elongation
GO:0060662 IDA salivary gland cavitation
GO:0060664 IMP epithelial cell proliferation involved in salivary gland morphogenesis
GO:0060684 IMP epithelial-mesenchymal cell signaling
GO:0060685 IMP regulation of prostatic bud formation
GO:0060738 ISO epithelial-mesenchymal signaling involved in prostate gland development
GO:0060768 IMP regulation of epithelial cell proliferation involved in prostate gland development
GO:0060769 IMP positive regulation of epithelial cell proliferation involved in prostate gland development
GO:0060782 IMP regulation of mesenchymal cell proliferation involved in prostate gland development
GO:0060783 IMP mesenchymal smoothened signaling pathway involved in prostate gland development
GO:0060840 IGI artery development
GO:0060916 IDA mesenchymal cell proliferation involved in lung development
GO:0060979 TAS vasculogenesis involved in coronary vascular morphogenesis
GO:0061053 IMP somite development
GO:0061189 IEA positive regulation of sclerotome development
GO:0071285 IDA cellular response to lithium ion
GO:0072001 IEA renal system development
GO:0072136 IMP metanephric mesenchymal cell proliferation involved in metanephros development
GO:0080125 IMP multicellular structure septum development
GO:0090090 IMP negative regulation of canonical Wnt signaling pathway
GO:0090370 IMP negative regulation of cholesterol efflux
GO:0097190 IDA apoptotic signaling pathway
GO:1900180 IEA regulation of protein localization to nucleus
GO:2000062 IDA negative regulation of ureter smooth muscle cell differentiation
GO:2000063 IMP positive regulation of ureter smooth muscle cell differentiation
GO:2000357 IDA negative regulation of kidney smooth muscle cell differentiation
GO:2000358 IDA positive regulation of kidney smooth muscle cell differentiation
GO:2000729 IMP positive regulation of mesenchymal cell proliferation involved in ureter development
GO:2001054 IMP negative regulation of mesenchymal cell apoptotic process

Homologs

ENSEMBL Accession Gene Name Biotype Species E-Value Bit Score
ENSDART00000149395 shha-001 protein_coding Danio_rerio 0.000000000000001 90
ENST00000297261 SHH-001 protein_coding Homo_sapiens 0 1164

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