Degs1 (delta(4)-desaturase, sphingolipid 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Degs1 (delta(4)-desaturase, sphingolipid 1) Rattus norvegicus
Analyze
Symbol: Degs1
Name: delta(4)-desaturase, sphingolipid 1
RGD ID: 70917
Description: Predicted to enable retinol isomerase activity and sphingolipid delta-4 desaturase activity. Predicted to be involved in ceramide biosynthetic process and myelin maintenance. Predicted to act upstream of or within positive regulation of apoptotic process. Predicted to be located in mitochondrion. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy. Orthologous to human DEGS1 (delta 4-desaturase, sphingolipid 1); PARTICIPATES IN sphingolipid metabolic pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: degenerative spermatocyte homolog (Drosophila); degenerative spermatocyte homolog 1 (Drosophila); degenerative spermatocyte homolog 1, lipid desaturase; degenerative spermatocyte homolog 1, lipid desaturase (Drosophila); degenerative spermatocyte-like protein RDES; Degs; dihydroceramide desaturase-1; retinol isomerase; sphingolipid delta(4)-desaturase DES1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21393,946,154 - 93,953,677 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,946,157 - 93,953,664 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1396,452,250 - 96,458,907 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01397,852,156 - 97,858,813 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01395,034,331 - 95,040,988 (-)NCBIRnor_WKY
Rnor_6.013100,665,265 - 100,672,731 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13100,666,075 - 100,672,731 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013105,599,106 - 105,606,572 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41398,242,981 - 98,249,638 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11398,431,962 - 98,438,556 (-)NCBI
Celera1393,480,467 - 93,487,120 (-)NCBICelera
Cytogenetic Map13q26NCBI
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

Biological Process

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Identification and characterization of a sphingolipid delta 4-desaturase family. Ternes P, etal., J Biol Chem 2002 Jul 12;277(28):25512-8. Epub 2002 Apr 05.
Additional References at PubMed
PMID:12477932   PMID:17716801   PMID:21914808   PMID:22139871   PMID:22984457   PMID:23143414   PMID:30620337   PMID:30620338  


Genomics

Comparative Map Data
Degs1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21393,946,154 - 93,953,677 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,946,157 - 93,953,664 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1396,452,250 - 96,458,907 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01397,852,156 - 97,858,813 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01395,034,331 - 95,040,988 (-)NCBIRnor_WKY
Rnor_6.013100,665,265 - 100,672,731 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13100,666,075 - 100,672,731 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013105,599,106 - 105,606,572 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41398,242,981 - 98,249,638 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11398,431,962 - 98,438,556 (-)NCBI
Celera1393,480,467 - 93,487,120 (-)NCBICelera
Cytogenetic Map13q26NCBI
DEGS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381224,183,240 - 224,193,441 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1224,175,756 - 224,193,441 (+)EnsemblGRCh38hg38GRCh38
GRCh371224,370,942 - 224,381,143 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361222,437,551 - 222,447,766 (+)NCBINCBI36Build 36hg18NCBI36
Celera1197,561,861 - 197,572,073 (+)NCBICelera
Cytogenetic Map1q42.11NCBI
HuRef1194,891,445 - 194,901,670 (+)NCBIHuRef
CHM1_11225,643,571 - 225,653,792 (+)NCBICHM1_1
T2T-CHM13v2.01223,372,483 - 223,382,685 (+)NCBIT2T-CHM13v2.0
Degs1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391182,103,529 - 182,110,366 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1182,103,337 - 182,110,369 (-)EnsemblGRCm39 Ensembl
GRCm381182,275,964 - 182,282,854 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1182,275,772 - 182,282,804 (-)EnsemblGRCm38mm10GRCm38
MGSCv371184,205,901 - 184,212,890 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361184,112,445 - 184,119,434 (-)NCBIMGSCv36mm8
Celera1189,318,025 - 189,324,947 (-)NCBICelera
Cytogenetic Map1H5NCBI
Degs1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555201,135,563 - 1,143,192 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555201,139,568 - 1,143,149 (-)NCBIChiLan1.0ChiLan1.0
DEGS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11204,659,389 - 204,683,171 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1204,659,389 - 204,668,901 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01199,651,712 - 199,661,848 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
DEGS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1740,147,293 - 40,152,190 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl740,147,505 - 40,153,085 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha739,629,447 - 39,639,491 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0739,982,286 - 39,992,310 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl739,980,406 - 39,992,266 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1739,822,856 - 39,832,860 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0739,830,750 - 39,840,481 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0740,099,271 - 40,109,303 (-)NCBIUU_Cfam_GSD_1.0
Degs1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934453,593,665 - 53,597,297 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365261,149,984 - 1,153,632 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DEGS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1012,557,767 - 12,568,978 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11012,529,021 - 12,568,447 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21014,976,597 - 15,053,245 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DEGS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1255,589,530 - 5,603,261 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl255,589,383 - 5,603,227 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660555,771,384 - 5,781,608 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Degs1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248355,880,301 - 5,889,294 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248355,880,855 - 5,889,295 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH132926  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21393,950,061 - 93,950,249 (+)MAPPERmRatBN7.2
Rnor_6.013100,669,173 - 100,669,360NCBIRnor6.0
Rnor_5.013105,603,014 - 105,603,201UniSTSRnor5.0
RGSC_v3.41398,246,080 - 98,246,267UniSTSRGSC3.4
Celera1393,483,566 - 93,483,753UniSTS
RH 3.4 Map13639.5UniSTS
Cytogenetic Map13q26UniSTS
RH138401  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21393,947,732 - 93,947,874 (+)MAPPERmRatBN7.2
Rnor_6.013100,666,844 - 100,666,985NCBIRnor6.0
Rnor_5.013105,600,685 - 105,600,826UniSTSRnor5.0
RGSC_v3.41398,243,751 - 98,243,892UniSTSRGSC3.4
Celera1393,481,237 - 93,481,378UniSTS
RH 3.4 Map13630.7UniSTS
Cytogenetic Map13q26UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655959Pur32Proteinuria QTL 328.4total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:43
Count of miRNA genes:38
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000004319
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 6 9 74 35 41 11 6
Low 2 2 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004319   ⟹   ENSRNOP00000004319
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1393,946,157 - 93,953,664 (-)Ensembl
Rnor_6.0 Ensembl13100,666,075 - 100,672,731 (-)Ensembl
RefSeq Acc Id: NM_053323   ⟹   NP_445775
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21393,946,963 - 93,953,620 (-)NCBI
Rnor_6.013100,666,074 - 100,672,731 (-)NCBI
Rnor_5.013105,599,106 - 105,606,572 (-)NCBI
RGSC_v3.41398,242,981 - 98,249,638 (-)RGD
Celera1393,480,467 - 93,487,120 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250403   ⟹   XP_006250465
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21393,946,154 - 93,953,344 (-)NCBI
Rnor_6.013100,665,265 - 100,672,446 (-)NCBI
Rnor_5.013105,599,106 - 105,606,572 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250404   ⟹   XP_006250466
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21393,946,154 - 93,953,344 (-)NCBI
Rnor_6.013100,665,265 - 100,672,446 (-)NCBI
Rnor_5.013105,599,106 - 105,606,572 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005492280
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21393,947,003 - 93,953,677 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_445775   ⟸   NM_053323
- UniProtKB: Q91XI6 (UniProtKB/Swiss-Prot),   Q5XIF5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006250466   ⟸   XM_006250404
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006250465   ⟸   XM_006250403
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000004319   ⟸   ENSRNOT00000004319

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIF5-F1-model_v2 AlphaFold Q5XIF5 1-323 view protein structure

Transcriptome

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

Promoters
RGD ID:13699076
Promoter ID:EPDNEW_R9601
Type:initiation region
Name:Degs1_1
Description:delta-desaturase, sphingolipid 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013100,672,742 - 100,672,802EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 100668980 100668981 A T snv MR/N (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 98245887 98245888 A T snv MR/N (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70917 AgrOrtholog
BioCyc Gene G2FUF-17079 BioCyc
Ensembl Genes ENSRNOG00000003223 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000004319 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004319 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7191263 IMAGE-MGC_LOAD
InterPro DES1 UniProtKB/Swiss-Prot
  DES1/DES2 UniProtKB/Swiss-Prot
  FA_desaturase_dom UniProtKB/Swiss-Prot
  Sphingolipid_d4-desaturase_N UniProtKB/Swiss-Prot
KEGG Report rno:58970 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94629 IMAGE-MGC_LOAD
NCBI Gene 58970 ENTREZGENE
PANTHER PTHR12879:SF2 UniProtKB/Swiss-Prot
Pfam FA_desaturase UniProtKB/Swiss-Prot
  Lipid_DES UniProtKB/Swiss-Prot
PhenoGen Degs1 PhenoGen
PIRSF Sphnglp_dlt4_des UniProtKB/Swiss-Prot
SMART Lipid_DES UniProtKB/Swiss-Prot
UniProt DEGS1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q91XI6 ENTREZGENE
UniProt Secondary Q564G4 UniProtKB/Swiss-Prot
  Q91XI6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-16 Degs1  delta(4)-desaturase, sphingolipid 1  Degs1  degenerative spermatocyte homolog 1, lipid desaturase (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Degs1  degenerative spermatocyte homolog 1, lipid desaturase (Drosophila)  Degs1  degenerative spermatocyte homolog 1 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Degs1  degenerative spermatocyte homolog 1 (Drosophila)  Degs  degenerative spermatocyte homolog (Drosophila)  Symbol and Name updated 1299863 APPROVED
2002-07-09 Degs  degenerative spermatocyte homolog (Drosophila)      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference