Syt14 (synaptotagmin 14) - Rat Genome Database
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Gene: Syt14 (synaptotagmin 14) Rattus norvegicus
Analyze
Symbol: Syt14
Name: synaptotagmin 14
RGD ID: 1592654
Description: Predicted to have identical protein binding activity and phospholipid binding activity. Predicted to localize to integral component of membrane. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 11. Orthologous to human SYT14 (synaptotagmin 14); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Also known as: hypothetical protein LOC680074; LOC680074; LOC684293; similar to synaptotagmin XIV; synaptotagmin XIV; synaptotagmin-14
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213104,416,796 - 104,570,790 (-)NCBI
Rnor_6.0 Ensembl13111,635,639 - 111,765,944 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.013111,630,005 - 111,766,334 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013116,186,049 - 116,320,586 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413108,868,527 - 108,880,916 (-)NCBIRGSC3.4rn4RGSC3.4
Celera13103,846,885 - 103,999,152 (-)NCBICelera
Cytogenetic Map13q27NCBI
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

Additional References at PubMed
PMID:12801916   PMID:21873635  


Genomics

Comparative Map Data
Syt14
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213104,416,796 - 104,570,790 (-)NCBI
Rnor_6.0 Ensembl13111,635,639 - 111,765,944 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.013111,630,005 - 111,766,334 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013116,186,049 - 116,320,586 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413108,868,527 - 108,880,916 (-)NCBIRGSC3.4rn4RGSC3.4
Celera13103,846,885 - 103,999,152 (-)NCBICelera
Cytogenetic Map13q27NCBI
SYT14
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1209,900,923 - 210,171,389 (+)EnsemblGRCh38hg38GRCh38
GRCh381209,938,165 - 210,171,389 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371210,111,562 - 210,344,734 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361208,178,161 - 208,404,259 (+)NCBINCBI36hg18NCBI36
Build 341206,499,990 - 206,724,066NCBI
Celera1183,335,212 - 183,561,024 (+)NCBI
Cytogenetic Map1q32.2NCBI
HuRef1180,796,743 - 181,008,157 (+)NCBIHuRef
CHM1_11211,383,862 - 211,609,930 (+)NCBICHM1_1
Syt14
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391192,564,956 - 192,718,179 (-)NCBIGRCm39mm39
GRCm39 Ensembl1192,573,541 - 192,718,083 (-)Ensembl
GRCm381192,882,653 - 193,035,871 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1192,891,233 - 193,035,775 (-)EnsemblGRCm38mm10GRCm38
MGSCv371194,723,501 - 194,861,892 (-)NCBIGRCm37mm9NCBIm37
MGSCv361194,598,031 - 194,736,422 (-)NCBImm8
Celera1199,779,178 - 199,917,892 (-)NCBICelera
Cytogenetic Map1H6NCBI
Syt14
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554892,017,884 - 2,276,301 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554892,017,884 - 2,275,834 (-)NCBIChiLan1.0ChiLan1.0
SYT14
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11190,386,087 - 190,596,464 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1190,386,089 - 190,596,464 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01185,508,466 - 185,735,732 (+)NCBIMhudiblu_PPA_v0panPan3
SYT14
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl78,598,392 - 8,786,739 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.178,612,458 - 8,795,812 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Syt14
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365572,955,355 - 3,160,079 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYT14
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9132,817,940 - 133,040,811 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19132,810,526 - 133,040,855 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29145,853,142 - 145,867,943 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYT14
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12519,303,593 - 19,518,468 (-)NCBI
ChlSab1.1 Ensembl2519,305,518 - 19,448,687 (-)Ensembl
Syt14
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248071,820,326 - 2,064,958 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1366971778111971778Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1371230858114033958Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1371230858114033958Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1372583716114033958Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)777694986114033958Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1386833393114033958Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:167
Count of miRNA genes:106
Interacting mature miRNAs:110
Transcripts:ENSRNOT00000073041, ENSRNOT00000074500
Prediction methods:Microtar, 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 55
Low 43 16 6 2 6 8 8 19 29 40 8 8
Below cutoff 3 24 18 16 18 1 6 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000073041   ⟹   ENSRNOP00000065555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl13111,635,639 - 111,765,944 (-)Ensembl
RefSeq Acc Id: XM_003751296   ⟹   XP_003751344
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,569,320 (-)NCBI
Rnor_6.013111,630,005 - 111,766,334 (-)NCBI
Rnor_5.013116,186,049 - 116,320,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003751297   ⟹   XP_003751345
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,570,783 (-)NCBI
Rnor_6.013111,630,005 - 111,766,334 (-)NCBI
Rnor_5.013116,186,049 - 116,320,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003752688   ⟹   XP_003752736
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera13103,846,885 - 103,999,152 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763936   ⟹   XP_008762158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera13103,846,885 - 103,947,534 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763940   ⟹   XP_008762162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera13103,846,885 - 103,947,534 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763947   ⟹   XP_008762169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera13103,846,885 - 103,999,152 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769895   ⟹   XP_008768117
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,517,843 (-)NCBI
Rnor_6.013111,630,005 - 111,716,125 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769896   ⟹   XP_008768118
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,517,843 (-)NCBI
Rnor_6.013111,630,005 - 111,716,125 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769897   ⟹   XP_008768119
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013111,667,243 - 111,716,125 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599017   ⟹   XP_017454506
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013111,630,005 - 111,765,838 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599018   ⟹   XP_017454507
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013111,630,005 - 111,723,548 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017604674   ⟹   XP_017460163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera13103,846,885 - 103,998,656 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017604675   ⟹   XP_017460164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera13103,846,885 - 103,955,920 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091518   ⟹   XP_038947446
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,570,787 (-)NCBI
RefSeq Acc Id: XM_039091519   ⟹   XP_038947447
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,570,790 (-)NCBI
RefSeq Acc Id: XM_039091520   ⟹   XP_038947448
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,568,803 (-)NCBI
RefSeq Acc Id: XM_039091521   ⟹   XP_038947449
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,568,945 (-)NCBI
RefSeq Acc Id: XM_039091522   ⟹   XP_038947450
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,470,066 - 104,517,843 (-)NCBI
RefSeq Acc Id: XM_039091523   ⟹   XP_038947451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,494,219 - 104,517,843 (-)NCBI
RefSeq Acc Id: XM_039091524   ⟹   XP_038947452
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,416,796 - 104,511,462 (-)NCBI
RefSeq Acc Id: XR_005492773
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,458,677 - 104,517,843 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_003751345   ⟸   XM_003751297
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_003751344   ⟸   XM_003751296
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_003752736   ⟸   XM_003752688
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008762169   ⟸   XM_008763947
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008762162   ⟸   XM_008763940
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008762158   ⟸   XM_008763936
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768118   ⟸   XM_008769896
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008768117   ⟸   XM_008769895
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768119   ⟸   XM_008769897
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017460163   ⟸   XM_017604674
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017460164   ⟸   XM_017604675
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017454506   ⟸   XM_017599017
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017454507   ⟸   XM_017599018
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000065555   ⟸   ENSRNOT00000073041
RefSeq Acc Id: XP_038947447   ⟸   XM_039091519
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038947446   ⟸   XM_039091518
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038947449   ⟸   XM_039091521
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038947448   ⟸   XM_039091520
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038947452   ⟸   XM_039091524
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038947450   ⟸   XM_039091522
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038947451   ⟸   XM_039091523
- Peptide Label: isoform X9
Protein Domains
C2

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 111640369 111640370 C G snv SR/JrHsd (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592654 AgrOrtholog
Ensembl Genes ENSRNOG00000046139 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000065555 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073041 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/TrEMBL
InterPro C2_Ca-dep UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  SYT14 UniProtKB/TrEMBL
  SYT14/14L/16 UniProtKB/TrEMBL
NCBI Gene 684293 ENTREZGENE
PANTHER PTHR46129 UniProtKB/TrEMBL
  PTHR46129:SF3 UniProtKB/TrEMBL
Pfam PF00168 UniProtKB/TrEMBL
PhenoGen Syt14 PhenoGen
PROSITE PS50004 UniProtKB/TrEMBL
SMART SM00239 UniProtKB/TrEMBL
UniProt M0R7W7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Syt14  synaptotagmin 14  Syt14  synaptotagmin XIV  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Syt14  synaptotagmin XIV  LOC680074  hypothetical protein LOC680074  Data Merged 737654 PROVISIONAL
2013-08-13 Syt14  synaptotagmin XIV  LOC684293  similar to synaptotagmin XIV  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC680074  hypothetical protein LOC680074      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684293  similar to synaptotagmin XIV      Symbol and Name status set to provisional 70820 PROVISIONAL