Synrg (synergin, gamma) - Rat Genome Database

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Gene: Synrg (synergin, gamma) Rattus norvegicus
Analyze
Symbol: Synrg
Name: synergin, gamma
RGD ID: 620684
Description: Predicted to be involved in endocytosis and protein transport. Part of clathrin coat of trans-Golgi network vesicle. Orthologous to human SYNRG (synergin gamma); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: AP1 gamma subunit binding protein 1; AP1 subunit gamma-binding protein 1; Ap1gbp1; gamma-synergin; synergin gamma; Syng
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
mRatBN7.21068,848,828 - 68,931,252 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1068,849,642 - 68,931,250 (+)Ensembl
Rnor_6.01071,278,698 - 71,357,791 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01070,890,012 - 70,927,522 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01071,230,888 - 71,271,499 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41072,247,720 - 72,330,036 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11072,262,041 - 72,309,447 (+)NCBI
Celera1067,788,307 - 67,860,055 (+)NCBICelera
Cytogenetic Map10q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:16903783   PMID:17218081   PMID:30053369  


Genomics

Comparative Map Data
Synrg
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21068,848,828 - 68,931,252 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1068,849,642 - 68,931,250 (+)Ensembl
Rnor_6.01071,278,698 - 71,357,791 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01070,890,012 - 70,927,522 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01071,230,888 - 71,271,499 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41072,247,720 - 72,330,036 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11072,262,041 - 72,309,447 (+)NCBI
Celera1067,788,307 - 67,860,055 (+)NCBICelera
Cytogenetic Map10q26NCBI
SYNRG
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381737,514,807 - 37,609,418 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1737,514,807 - 37,609,472 (-)EnsemblGRCh38hg38GRCh38
GRCh371735,874,910 - 35,969,466 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361732,952,046 - 33,043,559 (-)NCBINCBI36hg18NCBI36
Build 341732,952,045 - 33,043,559NCBI
Celera1732,697,883 - 32,792,525 (-)NCBI
Cytogenetic Map17q12NCBI
HuRef1731,812,168 - 31,906,906 (-)NCBIHuRef
CHM1_11735,906,360 - 36,001,001 (-)NCBICHM1_1
T2T-CHM13v2.01738,501,491 - 38,596,392 (-)NCBI
Synrg
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391183,855,217 - 83,935,404 (+)NCBIGRCm39mm39
GRCm39 Ensembl1183,855,254 - 83,935,404 (+)Ensembl
GRCm381183,964,390 - 84,044,578 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1183,964,428 - 84,044,578 (+)EnsemblGRCm38mm10GRCm38
MGSCv371183,777,930 - 83,855,591 (+)NCBIGRCm37mm9NCBIm37
MGSCv361183,780,666 - 83,858,284 (+)NCBImm8
Celera1193,569,471 - 93,647,214 (+)NCBICelera
Cytogenetic Map11CNCBI
Synrg
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955451438,904 - 510,136 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955451439,205 - 510,675 (+)NCBIChiLan1.0ChiLan1.0
SYNRG
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11719,768,062 - 19,860,323 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1719,768,058 - 19,860,323 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01719,467,539 - 19,560,618 (+)NCBIMhudiblu_PPA_v0panPan3
SYNRG
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1937,280,620 - 37,365,477 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl937,280,645 - 37,366,116 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha936,505,186 - 36,589,564 (-)NCBI
ROS_Cfam_1.0938,091,575 - 38,176,008 (-)NCBI
ROS_Cfam_1.0 Ensembl938,091,575 - 38,176,037 (-)Ensembl
UMICH_Zoey_3.1936,872,387 - 36,956,768 (-)NCBI
UNSW_CanFamBas_1.0937,159,961 - 37,244,338 (-)NCBI
UU_Cfam_GSD_1.0937,246,724 - 37,331,356 (-)NCBI
Synrg
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560236,235,031 - 36,298,157 (-)NCBI
SpeTri2.0NW_004936490776,939 - 840,019 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNRG
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1238,975,890 - 39,069,833 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11238,974,567 - 39,069,868 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21240,620,317 - 40,711,486 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYNRG
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11630,171,704 - 30,265,143 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1630,181,431 - 30,264,981 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666077893,668 - 991,044 (+)NCBIVero_WHO_p1.0
Synrg
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248714,509,428 - 4,593,337 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248714,505,693 - 4,593,472 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D10Rat220  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,886,263 - 68,886,389 (+)MAPPERmRatBN7.2
Rnor_6.01071,315,272 - 71,315,397NCBIRnor6.0
Rnor_5.01070,927,579 - 70,927,704UniSTSRnor5.0
RGSC_v3.41072,285,503 - 72,285,629RGDRGSC3.4
RGSC_v3.41072,285,504 - 72,285,629UniSTSRGSC3.4
RGSC_v3.11072,299,873 - 72,299,999RGD
Celera1067,815,955 - 67,816,080UniSTS
FHH x ACI Map1060.3399RGD
FHH x ACI Map1060.3399UniSTS
Cytogenetic Map10q26UniSTS
RH134237  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,898,042 - 68,898,243 (+)MAPPERmRatBN7.2
Rnor_6.01071,325,251 - 71,325,451NCBIRnor6.0
Rnor_5.01071,238,959 - 71,239,159UniSTSRnor5.0
RGSC_v3.41072,297,496 - 72,297,696UniSTSRGSC3.4
Celera1067,827,524 - 67,827,724UniSTS
Cytogenetic Map10q26UniSTS
RH140600  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,848,578 - 68,848,798 (+)MAPPERmRatBN7.2
Rnor_6.01071,277,587 - 71,277,806NCBIRnor6.0
Rnor_5.01070,888,900 - 70,889,119UniSTSRnor5.0
RGSC_v3.41072,246,609 - 72,246,828UniSTSRGSC3.4
Celera1067,778,102 - 67,778,321UniSTS
Cytogenetic Map10q26UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)104944455181709989Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)106134527681714865Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106134527698211570Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
61402Niddm3Non-insulin dependent diabetes mellitus QTL 34.58blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)106134541382564856Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
2298481Eau9Experimental allergic uveoretinitis QTL 90.0169uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)106592723382565079Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106674365598003205Rat
631565Hcuc4Hepatic copper content QTL 44.15hepatic copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)106694181373452992Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106750210873579767Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
1642290Bp299Blood pressure QTL 299arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106823013469282520Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:166
Count of miRNA genes:106
Interacting mature miRNAs:108
Transcripts:ENSRNOT00000000259, ENSRNOT00000055908
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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086970 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086973 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086974 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086979 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC105531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF169549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF242544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF121977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF121978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF121979 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF121980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF121981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF121982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: NM_053419   ⟹   NP_445871
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,849,690 - 68,930,586 (+)NCBI
Rnor_6.01071,278,698 - 71,357,791 (+)NCBI
Rnor_5.01070,890,012 - 70,927,522 (+)NCBI
Rnor_5.01071,230,888 - 71,271,499 (+)NCBI
RGSC_v3.41072,247,720 - 72,330,036 (+)RGD
Celera1067,788,307 - 67,860,055 (+)RGD
Sequence:
RefSeq Acc Id: XM_039086970   ⟹   XP_038942898
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086971   ⟹   XP_038942899
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086972   ⟹   XP_038942900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086973   ⟹   XP_038942901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086974   ⟹   XP_038942902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086975   ⟹   XP_038942903
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086976   ⟹   XP_038942904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086977   ⟹   XP_038942905
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086978   ⟹   XP_038942906
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086979   ⟹   XP_038942907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086980   ⟹   XP_038942908
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086981   ⟹   XP_038942909
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XM_039086982   ⟹   XP_038942910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XR_005489958
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,931,252 (+)NCBI
RefSeq Acc Id: XR_005489959
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,848,828 - 68,929,351 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_445871   ⟸   NM_053419
- UniProtKB: Q9JKC9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_038942898   ⟸   XM_039086970
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942900   ⟸   XM_039086972
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942901   ⟸   XM_039086973
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038942899   ⟸   XM_039086971
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038942902   ⟸   XM_039086974
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038942903   ⟸   XM_039086975
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038942909   ⟸   XM_039086981
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038942904   ⟸   XM_039086976
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038942905   ⟸   XM_039086977
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038942910   ⟸   XM_039086982
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038942906   ⟸   XM_039086978
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038942907   ⟸   XM_039086979
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038942908   ⟸   XM_039086980
- Peptide Label: isoform X11
Protein Domains
EH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0L4-F1-model_v2 AlphaFold A0A0G2K0L4 1-362 view protein structure
AF-Q9JKC9-F1-model_v2 AlphaFold Q9JKC9 1-1329 view protein structure

Transcriptome

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

Promoters
RGD ID:13697550
Promoter ID:EPDNEW_R8069
Type:initiation region
Name:AC105531_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_6.01071,278,654 - 71,278,714EPDNEW

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
10 71342402 71342403 T C snv CDS, LEXF1C/Stm (2019), CDR
10 71342412 71342413 G A snv CDS, CDR
10 71342426 71342427 A T snv CDS, CDR


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620684 AgrOrtholog
BIND 130900
BioCyc Gene G2FUF-23850 BioCyc
Ensembl Genes ENSRNOG00000053814 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000070454 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070940 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071493 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000089038 ENTREZGENE
Ensembl Transcript ENSRNOT00000079418 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000087428 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000092020 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000120087 ENTREZGENE
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYNRG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84479 UniProtKB/Swiss-Prot
NCBI Gene 84479 ENTREZGENE
PANTHER PTHR15463 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Synrg PhenoGen
PROSITE PS50031 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00027 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096MJZ7_RAT UniProtKB/TrEMBL
  A0A0G2JZ76_RAT UniProtKB/TrEMBL
  A0A0G2K0L4_RAT UniProtKB/TrEMBL
  Q9JKC9 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary A1EC70 UniProtKB/Swiss-Prot
  A1EC72 UniProtKB/Swiss-Prot
  A1EC74 UniProtKB/Swiss-Prot
  A1EC75 UniProtKB/Swiss-Prot
  Q9R145 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-09-17 Synrg  synergin, gamma  Ap1gbp1  AP1 gamma subunit binding protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Ap1gbp1  AP1 gamma subunit binding protein 1      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Ap1gbp1  AP1 gamma subunit binding protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization associated with AP-1 both in the cytosol and on TGN membranes, enriched in clathrin-coated vesicles 631945
gene_domains contains an Eps15 homology (EH) domain 631945
gene_physical_interaction interacts with the ear domain of the gamma-adaptin subunit of the AP1 adaptor complex 631945
gene_physical_interaction binds to NPF repeats of SCAMP1 (secretory carrier membrane protein 1) 631946