Serinc1 (serine incorporator 1) - Rat Genome Database

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Gene: Serinc1 (serine incorporator 1) Rattus norvegicus
Analyze
Symbol: Serinc1
Name: serine incorporator 1
RGD ID: 727843
Description: Enables enzyme binding activity and protein-macromolecule adaptor activity. Involved in membrane biogenesis; phosphatidylserine metabolic process; and sphingolipid metabolic process. Located in endoplasmic reticulum membrane and plasma membrane. Orthologous to human SERINC1 (serine incorporator 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LRRGT00191; Tde1l; Tde2; tumor differentially expressed 1 protein-like; tumor differentially expressed 1, like; tumor differentially expressed protein 1-like; tumor differentially expressed protein 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82037,396,497 - 37,415,433 (-)NCBIGRCr8
mRatBN7.22036,850,062 - 36,868,999 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2036,850,076 - 36,896,691 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2037,870,080 - 37,888,964 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02037,260,777 - 37,279,665 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02037,987,832 - 38,006,720 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02038,966,016 - 38,985,056 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2038,967,238 - 38,985,036 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02040,703,831 - 40,722,871 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42036,541,193 - 36,560,101 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12036,554,996 - 36,573,901 (-)NCBI
Celera2038,164,769 - 38,183,684 (-)NCBICelera
Cytogenetic Map20q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
epilepsy  (ISO)

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

Biological Process

Cellular Component

Molecular Function

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. Serinc, an activity-regulated protein family, incorporates serine into membrane lipid synthesis. Inuzuka M, etal., J Biol Chem. 2005 Oct 21;280(42):35776-83. Epub 2005 Aug 24.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. NCBI rat LocusLink and RefSeq merged data October 15, 2003 NCBI rat LocusLink and RefSeq merged data October 15, 2003
5. Identification of TDE2 gene and its expression in non-small cell lung cancer. Player A, etal., Int J Cancer 2003 Nov 1;107(2):238-43.
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10637174   PMID:12477932   PMID:23376485  


Genomics

Comparative Map Data
Serinc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82037,396,497 - 37,415,433 (-)NCBIGRCr8
mRatBN7.22036,850,062 - 36,868,999 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2036,850,076 - 36,896,691 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2037,870,080 - 37,888,964 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02037,260,777 - 37,279,665 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02037,987,832 - 38,006,720 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02038,966,016 - 38,985,056 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2038,967,238 - 38,985,036 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02040,703,831 - 40,722,871 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42036,541,193 - 36,560,101 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12036,554,996 - 36,573,901 (-)NCBI
Celera2038,164,769 - 38,183,684 (-)NCBICelera
Cytogenetic Map20q12NCBI
SERINC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386122,443,351 - 122,471,807 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6122,443,351 - 122,471,807 (-)EnsemblGRCh38hg38GRCh38
GRCh376122,764,496 - 122,792,952 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366122,806,192 - 122,834,651 (-)NCBINCBI36Build 36hg18NCBI36
Build 346122,806,191 - 122,834,651NCBI
Celera6123,508,786 - 123,537,260 (-)NCBICelera
Cytogenetic Map6q22.31NCBI
HuRef6120,341,469 - 120,369,953 (-)NCBIHuRef
CHM1_16123,028,296 - 123,056,788 (-)NCBICHM1_1
T2T-CHM13v2.06123,631,640 - 123,660,124 (-)NCBIT2T-CHM13v2.0
Serinc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391057,391,870 - 57,408,573 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1057,391,870 - 57,408,626 (-)EnsemblGRCm39 Ensembl
GRCm381057,515,774 - 57,532,529 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1057,515,774 - 57,532,530 (-)EnsemblGRCm38mm10GRCm38
MGSCv371057,235,580 - 57,252,335 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361057,204,193 - 57,220,864 (-)NCBIMGSCv36mm8
Celera1058,334,364 - 58,351,120 (-)NCBICelera
Cytogenetic Map10B4NCBI
cM Map1029.19NCBI
Serinc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554364,416,134 - 4,435,263 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554364,414,629 - 4,435,353 (-)NCBIChiLan1.0ChiLan1.0
SERINC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25142,437,407 - 142,465,931 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16140,336,651 - 140,365,182 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06120,231,789 - 120,260,355 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16124,356,203 - 124,384,659 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6124,356,204 - 124,384,659 (-)Ensemblpanpan1.1panPan2
SERINC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1161,813,404 - 61,845,345 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl161,739,224 - 61,845,296 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha162,623,435 - 62,655,373 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0162,017,867 - 62,049,811 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl161,991,621 - 62,049,856 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1161,952,560 - 61,984,460 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0161,739,772 - 61,771,692 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0162,388,783 - 62,420,655 (-)NCBIUU_Cfam_GSD_1.0
Serinc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946112,709,078 - 112,729,330 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049368021,346,708 - 1,366,989 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049368021,346,565 - 1,366,817 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SERINC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl140,099,328 - 40,141,541 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1140,099,323 - 40,141,552 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2144,437,423 - 44,446,786 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SERINC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11351,324,071 - 51,353,226 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1351,324,049 - 51,351,536 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604023,624,518 - 23,653,234 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Serinc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247988,618,671 - 8,644,780 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247988,618,750 - 8,641,291 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Serinc1
34 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:142
Count of miRNA genes:114
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000001066
Prediction methods:Miranda
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)202924438854435887Rat
70158Bp60Blood pressure QTL 603arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)203161428444396023Rat

Markers in Region
AU048742  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map14q11UniSTS
Cytogenetic Map13q27UniSTS
Cytogenetic Map13q24UniSTS
Cytogenetic Map20q11UniSTS
RH133897  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22036,850,124 - 36,850,320 (+)MAPPERmRatBN7.2
Rnor_6.02038,966,079 - 38,966,274NCBIRnor6.0
Rnor_5.02040,703,894 - 40,704,089UniSTSRnor5.0
RGSC_v3.42036,541,256 - 36,541,451UniSTSRGSC3.4
Celera2038,164,832 - 38,165,027UniSTS
RH 3.4 Map20392.7UniSTS
Cytogenetic Map20q11UniSTS


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 2
Medium 3 43 57 41 19 41 8 11 72 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001066   ⟹   ENSRNOP00000001066
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2036,850,076 - 36,868,961 (-)Ensembl
Rnor_6.0 Ensembl2038,967,238 - 38,985,036 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000074379   ⟹   ENSRNOP00000064593
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2036,850,076 - 36,896,691 (-)Ensembl
RefSeq Acc Id: NM_182951   ⟹   NP_891996
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82037,396,497 - 37,415,433 (-)NCBI
mRatBN7.22036,850,062 - 36,868,999 (-)NCBI
Rnor_6.02038,966,016 - 38,985,056 (-)NCBI
Rnor_5.02040,703,831 - 40,722,871 (-)NCBI
RGSC_v3.42036,541,193 - 36,560,101 (-)RGD
Celera2038,164,769 - 38,183,684 (-)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_891996   ⟸   NM_182951
- UniProtKB: Q7TNK0 (UniProtKB/Swiss-Prot),   A6K4C4 (UniProtKB/TrEMBL),   A6K4C3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001066   ⟸   ENSRNOT00000001066
RefSeq Acc Id: ENSRNOP00000064593   ⟸   ENSRNOT00000074379
Protein Domains
Reverse transcriptase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q7TNK0-F1-model_v2 AlphaFold Q7TNK0 1-453 view protein structure
AF-M0R5C9-F1-model_v2 AlphaFold M0R5C9 1-1607 view protein structure

Transcriptome

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

Promoters
RGD ID:13701635
Promoter ID:EPDNEW_R12159
Type:initiation region
Name:Serinc1_1
Description:serine incorporator 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_6.02038,985,046 - 38,985,106EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:727843 AgrOrtholog
BioCyc Gene G2FUF-3587 BioCyc
Ensembl Genes ENSRNOG00000029360 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055014367 UniProtKB/Swiss-Prot
  ENSRNOG00060008375 UniProtKB/Swiss-Prot
  ENSRNOG00065003382 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000001066 ENTREZGENE
  ENSRNOT00000001066.7 UniProtKB/Swiss-Prot
  ENSRNOT00000074379.3 UniProtKB/TrEMBL
  ENSRNOT00055024660 UniProtKB/Swiss-Prot
  ENSRNOT00060013938 UniProtKB/Swiss-Prot
  ENSRNOT00065004818 UniProtKB/Swiss-Prot
Gene3D-CATH 3.60.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7315523 IMAGE-MGC_LOAD
InterPro DNA/RNA_pol_sf UniProtKB/TrEMBL
  DUF1725 UniProtKB/TrEMBL
  Endo/exonu/phosph_ase_sf UniProtKB/TrEMBL
  RT_dom UniProtKB/TrEMBL
  TDE1/TMS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:294421 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105269 IMAGE-MGC_LOAD
NCBI Gene 294421 ENTREZGENE
PANTHER LINE-1 RETROTRANSPOSABLE ELEMENT ORF2 PROTEIN UniProtKB/TrEMBL
  PTHR10383 UniProtKB/Swiss-Prot
  PTHR10383:SF15 UniProtKB/Swiss-Prot
  REVERSE TRANSCRIPTASES UniProtKB/TrEMBL
  SERINE INCORPORATOR UniProtKB/TrEMBL
  SERINE INCORPORATOR 1 UniProtKB/TrEMBL
Pfam DUF1725 UniProtKB/TrEMBL
  RVT_1 UniProtKB/TrEMBL
  Serinc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Serinc1 PhenoGen
PROSITE RT_POL UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029360 RatGTEx
  ENSRNOG00055014367 RatGTEx
  ENSRNOG00060008375 RatGTEx
  ENSRNOG00065003382 RatGTEx
Superfamily-SCOP SSF56219 UniProtKB/TrEMBL
  SSF56672 UniProtKB/TrEMBL
UniProt A6K4C3 ENTREZGENE, UniProtKB/TrEMBL
  A6K4C4 ENTREZGENE, UniProtKB/TrEMBL
  A6K4C5_RAT UniProtKB/TrEMBL
  A6K4C6_RAT UniProtKB/TrEMBL
  M0R5C9_RAT UniProtKB/TrEMBL
  Q7TNK0 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Serinc1  serine incorporator 1  Tde2  tumor differentially expressed 1, like  Symbol and Name updated 1299863 APPROVED
2004-09-10 Tde2  tumor differentially expressed 1, like  Tde1l    Symbol and Name updated 1299863 APPROVED