Degs1l2 (delta(4)-desaturase, sphingolipid 1 like 2) - Rat Genome Database

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Gene: Degs1l2 (delta(4)-desaturase, sphingolipid 1 like 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Degs1l2
Name: delta(4)-desaturase, sphingolipid 1 like 2
RGD ID: 1564463
Description: Predicted to enable sphingolipid delta-4 desaturase activity. Predicted to be involved in ceramide biosynthetic process. Predicted to be located in endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 18. Orthologous to human DEGS1 (delta 4-desaturase, sphingolipid 1); PARTICIPATES IN sphingolipid metabolic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl; gentamycin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC289322; RGD1564463; similar to Mdes protein; sphingolipid delta(4)-desaturase DES1; uncharacterized protein LOC289322
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81395,363,287 - 95,371,000 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1395,363,345 - 95,370,993 (+)EnsemblGRCr8
mRatBN7.21392,831,549 - 92,839,257 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,831,537 - 92,839,246 (+)EnsemblmRatBN7.2
Dahl_SR_JrHsd1394,747,551 - 94,755,232 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1394,958,626 - 94,966,307 (+)NCBILyon_Normotensive
Lyon_Hypertensive1394,889,293 - 94,896,974 (+)NCBILyon_Hypertensive
F344_StmMcwi1394,942,052 - 94,949,731 (+)NCBIF344_StmMcwi
Rnor_6.01399,374,006 - 99,395,804 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,387,950 - 99,395,842 (+)Ensemblrn6Rnor6.0
Rnor_5.013104,377,967 - 104,392,691 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41396,840,774 - 96,847,914 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1392,364,151 - 92,380,695 (+)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Degs1l2
25 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:88
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000004815
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)1365613454109350286Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1368983334109350286Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1367635937109350286Rat
1576318Schws5Schwannoma susceptibility QTL 50.0351nervous system integrity trait (VT:0010566)post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)1364497900109350286Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1338975045103588154Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)1371610804109350286Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1383286150109350286Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137298450699745408Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1367635937109350286Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1364375743109350286Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1367635937109350286Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
13 2 13 92 69 68 40 33 40 5 177 65 3 71 57 87 28 7 7

Sequence


Ensembl Acc Id: ENSRNOT00000004815   ⟹   ENSRNOP00000004815
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1395,363,345 - 95,370,993 (+)Ensembl
mRatBN7.2 Ensembl1392,831,537 - 92,839,246 (+)Ensembl
Rnor_6.0 Ensembl1399,387,950 - 99,395,842 (+)Ensembl
RefSeq Acc Id: NM_001430783   ⟹   NP_001417712
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Dahl_SR_JrHsd1394,747,551 - 94,755,232 (+)NCBI
Lyon_Normotensive1394,958,626 - 94,966,307 (+)NCBI
Lyon_Hypertensive1394,889,293 - 94,896,974 (+)NCBI
F344_StmMcwi1394,942,052 - 94,949,731 (+)NCBI
RefSeq Acc Id: XM_223005   ⟹   XP_223005
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,363,287 - 95,371,000 (+)NCBI
mRatBN7.21392,831,549 - 92,839,257 (+)NCBI
Rnor_6.01399,387,948 - 99,395,801 (+)NCBI
Rnor_5.013104,377,967 - 104,392,691 (+)NCBI
RGSC_v3.41396,840,774 - 96,847,914 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001417712 (Get FASTA)   NCBI Sequence Viewer  
  XP_223005 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94848 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004815
  ENSRNOP00000004815.4
RefSeq Acc Id: XP_223005   ⟸   XM_223005
- Sequence:
Ensembl Acc Id: ENSRNOP00000004815   ⟸   ENSRNOT00000004815
RefSeq Acc Id: NP_001417712   ⟸   NM_001430783
Protein Domains
Sphingolipid delta4-desaturase N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZXB2-F1-model_v2 AlphaFold D3ZXB2 1-324 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564463 AgrOrtholog
BioCyc Gene G2FUF-17100 BioCyc
Ensembl Genes ENSRNOG00000003601 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004815 ENTREZGENE
  ENSRNOT00000004815.7 UniProtKB/TrEMBL
InterPro Fatty_acid_desaturase-1 UniProtKB/TrEMBL
  Sphingolipid_d4-desaturase UniProtKB/TrEMBL
  Sphingolipid_d4-desaturase_N UniProtKB/TrEMBL
KEGG Report rno:289322 UniProtKB/TrEMBL
NCBI Gene 289322 ENTREZGENE
PANTHER PTHR12879:SF2 UniProtKB/TrEMBL
  SPHINGOLIPID DELTA 4 DESATURASE/C-4 HYDROXYLASE PROTEIN DES2 UniProtKB/TrEMBL
Pfam FA_desaturase UniProtKB/TrEMBL
  Lipid_DES UniProtKB/TrEMBL
PhenoGen Degs1l2 PhenoGen
PIRSF Sphnglp_dlt4_des UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003601 RatGTEx
SMART Lipid_DES UniProtKB/TrEMBL
UniProt A6JGJ2 ENTREZGENE, UniProtKB/TrEMBL
  D3ZXB2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Degs1l2  delta(4)-desaturase, sphingolipid 1 like 2  RGD1564463  similar to Mdes protein  Symbol and Name Changed 1299863 APPROVED
2008-04-30 RGD1564463  similar to Mdes protein   RGD1564463_predicted  similar to Mdes protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564463_predicted  similar to Mdes protein (predicted)  LOC289322  similar to Mdes protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC289322  similar to Mdes protein      Symbol and Name status set to provisional 70820 PROVISIONAL