Smpd4 (sphingomyelin phosphodiesterase 4) - Rat Genome Database

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Gene: Smpd4 (sphingomyelin phosphodiesterase 4) Chinchilla lanigera
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Symbol: Smpd4
Name: sphingomyelin phosphodiesterase 4
RGD ID: 9022173
Description: ENCODES a protein that exhibits sphingomyelin phosphodiesterase activity (ortholog); sphingomyelin phosphodiesterase D activity (ortholog); INVOLVED IN cellular response to tumor necrosis factor (ortholog); ceramide biosynthetic process (ortholog); endoplasmic reticulum organization (ortholog); ASSOCIATED WITH NEURODEVELOPMENTAL DISORDER WITH MICROCEPHALY, ARTHROGRYPOSIS, AND STRUCTURAL BRAIN ANOMALIES (ortholog); FOUND IN endoplasmic reticulum (ortholog); Golgi apparatus (ortholog); nuclear envelope (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sphingomyelin phosphodiesterase 4, neutral membrane (neutral sphingomyelinase-3)
RGD Orthologs
Human
Mouse
Rat
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544219,184,794 - 19,210,999 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544219,184,794 - 19,210,999 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References


Genomics

Comparative Map Data
Smpd4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544219,184,794 - 19,210,999 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544219,184,794 - 19,210,999 (-)NCBIChiLan1.0ChiLan1.0
SMPD4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382130,151,392 - 130,181,757 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2130,151,392 - 130,182,750 (-)EnsemblGRCh38hg38GRCh38
GRCh372130,908,965 - 130,939,330 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362130,625,450 - 130,656,164 (-)NCBINCBI36hg18NCBI36
Celera2124,183,727 - 124,215,108 (-)NCBI
Cytogenetic Map2q21.1NCBI
HuRef2123,204,890 - 123,236,080 (-)NCBIHuRef
CHM1_12130,912,697 - 130,944,055 (-)NCBICHM1_1
T2T-CHM13v2.02130,585,291 - 130,615,653 (-)NCBI
Smpd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391617,437,218 - 17,462,694 (+)NCBIGRCm39mm39
GRCm39 Ensembl1617,437,218 - 17,462,692 (+)Ensembl
GRCm381617,619,354 - 17,644,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,619,354 - 17,644,828 (+)EnsemblGRCm38mm10GRCm38
MGSCv371617,619,447 - 17,644,923 (+)NCBIGRCm37mm9NCBIm37
MGSCv361617,532,917 - 17,556,946 (+)NCBImm8
Celera1618,192,592 - 18,218,068 (+)NCBICelera
Cytogenetic Map16A3NCBI
Smpd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21183,362,534 - 83,386,257 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1183,362,534 - 83,386,250 (-)Ensembl
Rnor_6.01187,522,971 - 87,546,687 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1187,522,971 - 87,546,687 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01190,575,599 - 90,599,309 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,352,180 - 85,375,918 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15169,511,693 - 169,512,094 (+)NCBI
Celera1182,134,192 - 82,157,831 (-)NCBICelera
Cytogenetic Map11q23NCBI
SMPD4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12630,397,687 - 30,419,072 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2630,398,768 - 30,418,979 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2630,356,382 - 30,377,775 (-)NCBI
ROS_Cfam_1.02631,806,536 - 31,827,917 (-)NCBI
ROS_Cfam_1.0 Ensembl2631,806,545 - 31,827,885 (-)Ensembl
UMICH_Zoey_3.12629,852,373 - 29,873,768 (-)NCBI
UNSW_CanFamBas_1.02629,476,170 - 29,497,990 (-)NCBI
UU_Cfam_GSD_1.02630,565,815 - 30,587,424 (-)NCBI
Smpd4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118140,077,691 - 140,106,127 (-)NCBI
SpeTri2.0NW_0049366192,647,880 - 2,676,371 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMPD4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1450,663,608 - 50,689,353 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11450,663,488 - 50,689,355 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21454,226,485 - 54,252,793 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMPD4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110131,882 - 162,244 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl10136,784 - 163,555 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660585,555,408 - 5,586,699 (-)NCBIVero_WHO_p1.0
Smpd4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624945566,203 - 592,254 (-)NCBIHetGla_female_1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000022181   ⟹   ENSCLAP00000021977
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,184,794 - 19,210,999 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022182   ⟹   ENSCLAP00000021978
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,184,794 - 19,210,844 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022183   ⟹   ENSCLAP00000021979
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,185,984 - 19,208,351 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022184   ⟹   ENSCLAP00000021980
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,185,984 - 19,208,351 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022185   ⟹   ENSCLAP00000021981
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,185,984 - 19,208,351 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022186   ⟹   ENSCLAP00000021982
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,185,984 - 19,202,235 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022187   ⟹   ENSCLAP00000021983
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544219,204,724 - 19,208,351 (-)Ensembl
RefSeq Acc Id: XM_005391811   ⟹   XP_005391868
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544219,184,794 - 19,210,999 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005391812   ⟹   XP_005391869
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544219,184,794 - 19,210,844 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005391813   ⟹   XP_005391870
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544219,184,794 - 19,210,999 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005391868 (Get FASTA)   NCBI Sequence Viewer  
  XP_005391869 (Get FASTA)   NCBI Sequence Viewer  
  XP_005391870 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005391870   ⟸   XM_005391813
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005391868   ⟸   XM_005391811
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005391869   ⟸   XM_005391812
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSCLAP00000021978   ⟸   ENSCLAT00000022182
RefSeq Acc Id: ENSCLAP00000021977   ⟸   ENSCLAT00000022181
RefSeq Acc Id: ENSCLAP00000021980   ⟸   ENSCLAT00000022184
RefSeq Acc Id: ENSCLAP00000021979   ⟸   ENSCLAT00000022183
RefSeq Acc Id: ENSCLAP00000021982   ⟸   ENSCLAT00000022186
RefSeq Acc Id: ENSCLAP00000021981   ⟸   ENSCLAT00000022185
RefSeq Acc Id: ENSCLAP00000021983   ⟸   ENSCLAT00000022187


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000015061 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCLAP00000021977 ENTREZGENE, UniProtKB/TrEMBL
  ENSCLAP00000021978 ENTREZGENE, UniProtKB/TrEMBL
  ENSCLAP00000021979 UniProtKB/TrEMBL
  ENSCLAP00000021980 UniProtKB/TrEMBL
  ENSCLAP00000021981 UniProtKB/TrEMBL
  ENSCLAP00000021982 UniProtKB/TrEMBL
  ENSCLAP00000021983 UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000022181 ENTREZGENE, UniProtKB/TrEMBL
  ENSCLAT00000022182 ENTREZGENE, UniProtKB/TrEMBL
  ENSCLAT00000022183 UniProtKB/TrEMBL
  ENSCLAT00000022184 UniProtKB/TrEMBL
  ENSCLAT00000022185 UniProtKB/TrEMBL
  ENSCLAT00000022186 UniProtKB/TrEMBL
  ENSCLAT00000022187 UniProtKB/TrEMBL
NCBI Gene Smpd4 ENTREZGENE
UniProt A0A8C2VX85_CHILA UniProtKB/TrEMBL
  A0A8C2VZG2_CHILA UniProtKB/TrEMBL
  A0A8C2W1S2_CHILA UniProtKB/TrEMBL
  A0A8C2W495_CHILA UniProtKB/TrEMBL
  A0A8C2W4W6_CHILA UniProtKB/TrEMBL
  A0A8C2YTE8_CHILA UniProtKB/TrEMBL
  A0A8C2YTE9_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-16 Smpd4  sphingomyelin phosphodiesterase 4    sphingomyelin phosphodiesterase 4, neutral membrane (neutral sphingomyelinase-3)  Symbol and/or name change 5135510 APPROVED