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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Transcript Info
Description: syndecan 1
Transcript Accession Transcript Name Contained in Gene Tax ID Strand Position Biotype
ENST00000254351 SDC1-001 ENSG00000115884 9606 - 2:20200797-20225112 protein_coding

Homo sapiens EnsemblGRCh38

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'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENST00000254351
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENST00000254351 1.782±0.00 6.305±0.00 8.482±0.00 0.232±0.00 4.300±0.07 4.680±3.02 0.060±0.00 97.597±29.70 72.129±62.52 16.741±5.72 0.240±0.00 24.070±17.83 51.120±28.31 1.259±0.00

Conserved Regions

Gene is not located within a conserved region.

Gene Ontology

GO IDEvidence TypeGO Description
GO:0001523 TAS retinoid metabolic process
GO:0005515 IPI protein binding
GO:0005737 IDA cytoplasm
GO:0005796 TAS Golgi lumen
GO:0005886 TAS plasma membrane
GO:0005887 TAS integral component of plasma membrane
GO:0005925 IDA focal adhesion
GO:0005975 TAS carbohydrate metabolic process
GO:0006024 TAS glycosaminoglycan biosynthetic process
GO:0006027 TAS glycosaminoglycan catabolic process
GO:0007603 TAS phototransduction, visible light
GO:0008022 IPI protein C-terminus binding
GO:0008092 IEA cytoskeletal protein binding
GO:0009986 IDA cell surface
GO:0030198 TAS extracellular matrix organization
GO:0030203 TAS glycosaminoglycan metabolic process
GO:0030204 TAS chondroitin sulfate metabolic process
GO:0042157 TAS lipoprotein metabolic process
GO:0043202 TAS lysosomal lumen
GO:0044281 TAS small molecule metabolic process
GO:0048627 ISS myoblast development
GO:0055002 IEP striated muscle cell development
GO:0070062 IDA extracellular vesicular exosome

Homologs

ENSEMBL Accession Gene Name Biotype Species E-Value Bit Score
ENSMUST00000020911 Sdc1-001 protein_coding Mus_musculus 0 1146
ENSMUST00000171158 Sdc1-201 protein_coding Mus_musculus 0 1011
ENSMUST00000159821 Sdc1-005 retained_intron Mus_musculus 0 287
ENSMUST00000161883 Sdc1-004 protein_coding Mus_musculus 0 237
ENSMUST00000160348 Sdc1-003 processed_transcript Mus_musculus 9e-33 147
ENSMUST00000122134 Gm16407-001 processed_pseudogene Mus_musculus 9e-28 130
ENSMUST00000118400 Gm14724-001 processed_pseudogene Mus_musculus 9e-28 130
ENSMUST00000070478 Sdc3-001 protein_coding Mus_musculus 0.000000000003 79
ENSMUST00000142909 Sdc4-002 processed_transcript Mus_musculus 0.0000003 62
ENSMUST00000017153 Sdc4-001 protein_coding Mus_musculus 0.0000003 62

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