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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: sphingomyelin phosphodiesterase 4
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSMUSG00000005899 Smpd4 10090 + 16:17619354-17644828 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENSMUST00000006053 Smpd4-001 17619354-17644828 protein_coding
  ENSMUST00000087486 Smpd4-017 17619363-17621995 retained_intron
  ENSMUST00000090159 Smpd4-004 17619363-17644827 protein_coding
  ENSMUST00000163476 Smpd4-002 17619357-17644827 protein_coding
  ENSMUST00000163592 Smpd4-015 17619389-17626004 protein_coding
  ENSMUST00000163997 Smpd4-011 17621487-17642803 protein_coding
  ENSMUST00000164292 Smpd4-022 17638322-17641062 retained_intron
  ENSMUST00000165092 Smpd4-016 17619517-17623946 protein_coding
  ENSMUST00000165363 Smpd4-003 17619360-17643347 protein_coding
  ENSMUST00000166091 Smpd4-005 17619381-17642148 retained_intron
  ENSMUST00000166322 Smpd4-023 17619363-17624284 retained_intron
  ENSMUST00000167217 Smpd4-010 17619374-17638525 nonsense_mediated_decay
  ENSMUST00000167362 Smpd4-013 17619357-17639275 processed_transcript
  ENSMUST00000167592 Smpd4-020 17638587-17640966 retained_intron
  ENSMUST00000168101 Smpd4-008 17619360-17626648 protein_coding
  ENSMUST00000169662 Smpd4-018 17619363-17625840 protein_coding
  ENSMUST00000170117 Smpd4-012 17621487-17642803 nonsense_mediated_decay
  ENSMUST00000170273 Smpd4-014 17621487-17642803 protein_coding
  ENSMUST00000170366 Smpd4-009 17621487-17642803 protein_coding
  ENSMUST00000170401 Smpd4-006 17619363-17644827 retained_intron
  ENSMUST00000170996 Smpd4-007 17621487-17642803 protein_coding
  ENSMUST00000171435 Smpd4-019 17619357-17626446 protein_coding
  ENSMUST00000172182 Smpd4-021 17619377-17626685 protein_coding

Mus musculus EnsemblGRCm38

Genome
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Genes
Gene structures from Ensembl
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Transcripts
Structures from Ensembl
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Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENSMUST00000006053ENSMUST00000163476ENSMUST00000164292ENSMUST00000165363ENSMUST00000167217ENSMUST00000167362ENSMUST00000170117ENSMUST00000170273ENSMUST00000170366ENSMUST00000170401
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENSMUST00000006053 N/A N/A 4.286±0.00 2.857±0.00 N/A N/A 1.306±0.12 1.146±0.00 3.336±1.25 1.973±0.00 1.342±0.21 2.214±0.00 2.020±0.21 N/A
ENSMUST00000163476 N/A N/A N/A 3.144±0.00 N/A N/A N/A N/A 4.808±0.36 N/A N/A N/A N/A N/A
ENSMUST00000164292 N/A 12.722±3.68 N/A N/A 6.355±0.00 9.342±0.00 N/A N/A N/A N/A N/A 15.155±1.59 N/A N/A
ENSMUST00000165363 5.543±1.24 4.891±1.36 6.873±0.04 8.584±1.13 3.407±1.23 2.969±0.51 2.788±0.67 5.471±0.62 5.166±3.96 3.761±0.44 1.372±0.45 6.081±1.41 5.226±1.94 20.809±5.56
ENSMUST00000167217 N/A N/A N/A N/A 7.875±0.00 N/A N/A N/A 3.023±0.00 N/A N/A N/A N/A N/A
ENSMUST00000167362 N/A N/A N/A N/A 11.972±0.00 N/A N/A N/A N/A N/A N/A N/A N/A N/A
ENSMUST00000170117 9.724±1.07 11.438±3.10 5.764±0.00 N/A 6.344±1.67 4.902±0.72 5.048±0.46 5.132±0.73 3.409±1.48 7.402±2.99 1.506±0.13 9.265±1.85 3.777±0.00 25.976±0.44
ENSMUST00000170273 4.518±0.71 6.207±1.73 N/A 7.839±2.30 5.785±1.57 4.917±0.33 N/A 5.814±2.27 6.375±4.38 5.194±0.75 N/A 10.077±3.30 2.879±0.26 19.158±4.79
ENSMUST00000170366 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 14.639±0.00
ENSMUST00000170401 3.140±0.00 N/A 1.396±0.00 5.933±0.18 1.991±0.34 N/A N/A N/A 2.581±1.42 2.256±0.17 N/A 3.081±1.39 1.451±0.18 N/A

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_00086B CIL_00086B_0002 VISTA 16:17508169-18111091
CIL_0004H9 CIL_0004H9_0002 CGP 16:17619354-17650738

Gene Ontology
GO IDEvidence TypeGO Description
GO:0004767 IEA sphingomyelin phosphodiesterase activity
GO:0005783 ISS endoplasmic reticulum
GO:0005794 ISS Golgi apparatus
GO:0005802 ISS trans-Golgi network
GO:0006685 ISS sphingomyelin catabolic process
GO:0008152 IEA metabolic process
GO:0016021 IEA integral component of membrane
GO:0046475 IEA glycerophospholipid catabolic process
GO:0046513 IEA ceramide biosynthetic process
GO:0046872 IEA metal ion binding
GO:0050290 IEA:ISS sphingomyelin phosphodiesterase D activity
GO:0071356 IEA cellular response to tumor necrosis factor

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000020730 smpd4 sphingomyelin phosphodiesterase 4 protein_coding Danio_rerio
ENSG00000136699 SMPD4 sphingomyelin phosphodiesterase 4, neutral membrane (neutral sphingomyelinase-3) protein_coding Homo_sapiens

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