Supt20h (SPT20 homolog, SAGA complex component) - Rat Genome Database

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Gene: Supt20h (SPT20 homolog, SAGA complex component) Rattus norvegicus
Analyze
Symbol: Supt20h
Name: SPT20 homolog, SAGA complex component
RGD ID: 1307812
Description: Predicted to have transcription coregulator activity. Predicted to be involved in positive regulation of gluconeogenesis and positive regulation of transcription by RNA polymerase II. Predicted to localize to SAGA complex. Orthologous to several human genes including SUPT20H (SPT20 homolog, SAGA complex component); PARTICIPATES IN RNA polymerase II transcription initiation pathway; INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Fam48a; family with sequence similarity 48, member A; LOC361946; RGD1307812; similar to transcription factor (p38 interacting protein); suppressor of Ty 20; Supt20; transcription factor (p38 interacting protein); transcription factor SPT20 homolog
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
mRatBN7.22138,897,316 - 138,930,495 (+)NCBI
Rnor_6.0 Ensembl2143,892,567 - 143,925,633 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02143,892,609 - 143,925,733 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02160,337,768 - 160,370,787 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42143,921,831 - 143,955,032 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12143,871,793 - 143,904,995 (+)NCBI
Celera2133,382,206 - 133,415,296 (+)NCBICelera
Cytogenetic Map2q26NCBI
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

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:15489334   PMID:18838386   PMID:24051374  


Genomics

Comparative Map Data
Supt20h
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22138,897,316 - 138,930,495 (+)NCBI
Rnor_6.0 Ensembl2143,892,567 - 143,925,633 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02143,892,609 - 143,925,733 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02160,337,768 - 160,370,787 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42143,921,831 - 143,955,032 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12143,871,793 - 143,904,995 (+)NCBI
Celera2133,382,206 - 133,415,296 (+)NCBICelera
Cytogenetic Map2q26NCBI
SUPT20H
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1337,009,312 - 37,059,713 (-)EnsemblGRCh38hg38GRCh38
GRCh381337,009,312 - 37,059,714 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371337,583,449 - 37,633,825 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361336,481,449 - 36,531,850 (-)NCBINCBI36hg18NCBI36
Build 341336,481,630 - 36,531,787NCBI
Celera1318,650,692 - 18,701,096 (-)NCBI
Cytogenetic Map13q13.3NCBI
HuRef1318,394,967 - 18,445,535 (-)NCBIHuRef
CHM1_11337,550,999 - 37,601,397 (-)NCBICHM1_1
Supt20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39354,600,181 - 54,636,184 (+)NCBIGRCm39mm39
GRCm39 Ensembl354,600,228 - 54,636,187 (+)Ensembl
GRCm38354,692,760 - 54,728,763 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl354,692,807 - 54,728,766 (+)EnsemblGRCm38mm10GRCm38
MGSCv37354,497,027 - 54,520,759 (+)NCBIGRCm37mm9NCBIm37
MGSCv36354,781,034 - 54,804,766 (+)NCBImm8
Celera354,414,785 - 54,438,517 (+)NCBICelera
Cytogenetic Map3CNCBI
Supt20h
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554319,014,726 - 9,050,844 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554319,013,325 - 9,050,844 (+)NCBIChiLan1.0ChiLan1.0
SUPT20H
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11336,647,184 - 36,698,654 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1336,647,544 - 36,687,513 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01318,217,142 - 18,268,937 (-)NCBIMhudiblu_PPA_v0panPan3
SUPT20H
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1253,658,528 - 3,698,487 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl253,658,795 - 3,701,763 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha253,688,667 - 3,728,598 (+)NCBI
ROS_Cfam_1.0253,756,852 - 3,796,789 (+)NCBI
UMICH_Zoey_3.1253,659,884 - 3,699,722 (+)NCBI
UNSW_CanFamBas_1.0253,650,940 - 3,690,848 (+)NCBI
UU_Cfam_GSD_1.0253,722,917 - 3,762,860 (+)NCBI
Supt20h
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945164,818,279 - 164,832,479 (+)NCBI
SpeTri2.0NW_00493647231,119,671 - 31,129,939 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SUPT20H
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1112,825,760 - 12,864,929 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11112,825,758 - 12,864,935 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21112,814,393 - 12,827,510 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SUPT20H
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1315,529,023 - 15,578,330 (-)NCBI
ChlSab1.1 Ensembl315,529,378 - 15,578,293 (-)Ensembl
Vero_WHO_p1.0NW_02366605728,706,306 - 28,755,612 (+)NCBI
Supt20h
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624776185,196 - 223,316 (+)NCBI

Position Markers
AI450544  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22138,918,413 - 138,918,534 (+)MAPPER
Rnor_6.02143,913,652 - 143,913,772NCBIRnor6.0
Rnor_5.02160,349,729 - 160,349,849UniSTSRnor5.0
RGSC_v3.42143,942,951 - 143,943,071UniSTSRGSC3.4
Celera2133,403,215 - 133,403,335UniSTS
Cytogenetic Map2q26UniSTS
RH129336  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22138,930,450 - 138,930,948 (+)MAPPER
mRatBN7.2562,498,224 - 62,498,442 (+)MAPPER
Rnor_6.0563,918,395 - 63,918,612NCBIRnor6.0
Rnor_6.02143,925,689 - 143,926,186NCBIRnor6.0
Rnor_5.0568,435,750 - 68,435,967UniSTSRnor5.0
Rnor_5.02160,337,315 - 160,337,812UniSTSRnor5.0
RGSC_v3.42143,954,988 - 143,955,485UniSTSRGSC3.4
RGSC_v3.4564,850,065 - 64,850,282UniSTSRGSC3.4
Celera565,096,714 - 65,096,931UniSTS
Celera2133,415,252 - 133,415,749UniSTS
RH 3.4 Map2860.6UniSTS
Cytogenetic Map2q26UniSTS
Cytogenetic Map5q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)223837491149614623Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
12879841Cm87Cardiac mass QTL 870.026heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)227161361148295267Rat
12879842Cm88Cardiac mass QTL 880.042heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)227161361148295267Rat
12879843Am3Aortic mass QTL 30.016aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)227161361148295267Rat
12879844Kidm62Kidney mass QTL 620.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227161361148295267Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242776916169852800Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242776916195645082Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243133606217498545Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243133606217498545Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243141290154583160Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243149788198704485Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246537589217498710Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256244671217498710Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)260325352147522851Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828049217498710Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828236243550655Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)268865414169852800Rat
1581578Cm49Cardiac mass QTL 494.90.01heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)268866454149614466Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)275687495221880419Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)278321410158159410Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278321410217498710Rat
2299162Iddm32Insulin dependent diabetes mellitus QTL 322.36blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)280631950149614623Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283754907237610852Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283819608239166203Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283819608243901375Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)293995316169852800Rat
9589093Slep10Serum leptin concentration QTL 103.840.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)2102356980147356980Rat
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2108880910153880910Rat
8662836Vetf8Vascular elastic tissue fragility QTL 80.66thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2110965721155965721Rat
1581552Pur12Proteinuria QTL 125.190.0009total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)2115721880154182196Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2116075644228737869Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2116075644228737869Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2118446646149614623Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2118446646149614623Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2118446646200453484Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2118446646200453484Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2118446646227707979Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2118446793228582621Rat
1354594Despr10Despair related QTL 100.00000249locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)2119789823164789823Rat
5135226Leukc2Leukocyte quantity QTL 2eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)2121750419155965721Rat
1582257Gluco21Glucose level QTL 213.10.0035blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2121750419169852800Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2123456539168456539Rat
1358360Sradr2Stress Responsive Adrenal Weight QTL 210.24adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)2133399373173020198Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2138901276217498710Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2140566078217498545Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141583337217498710Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2142053350204585731Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2142053350228984665Rat
1549841Bp256Blood pressure QTL 2560.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2142355464148295508Rat
12879830Bw178Body weight QTL 1780.001body mass (VT:0001259)body weight (CMO:0000012)2142355464148295508Rat
12879831Cm82Cardiac mass QTL 820.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2142355464148295508Rat
12879832Cm83Cardiac mass QTL 830.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2142355464148295508Rat
12879833Cm84Cardiac mass QTL 840.001heart right ventricle mass (VT:0007033)heart weight to body weight ratio (CMO:0000074)2142355464148295508Rat
12879834Am1Aortic mass QTL 10.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2142355464148295508Rat
12879835Kidm60Kidney mass QTL 600.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2142355464148295508Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2143447078188447078Rat


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 8 10 74 35 41 11 8
Low 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001014170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232344 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760994 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017590966 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005500313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC105693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000080026   ⟹   ENSRNOP00000070797
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2143,895,982 - 143,913,935 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080443   ⟹   ENSRNOP00000075507
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2143,892,567 - 143,925,633 (+)Ensembl
RefSeq Acc Id: NM_001014170   ⟹   NP_001014192
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,416 - 138,930,495 (+)NCBI
Rnor_6.02143,892,655 - 143,925,733 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
RGSC_v3.42143,921,831 - 143,955,032 (+)RGD
Celera2133,382,206 - 133,415,296 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232338   ⟹   XP_006232400
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
Rnor_6.02143,892,609 - 143,925,731 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006232341   ⟹   XP_006232403
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006232342   ⟹   XP_006232404
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,496 - 138,930,493 (+)NCBI
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006232344   ⟹   XP_006232406
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,499 - 138,930,493 (+)NCBI
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006232345   ⟹   XP_006232407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
Rnor_6.02143,892,609 - 143,925,731 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006232346   ⟹   XP_006232408
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,497 - 138,930,493 (+)NCBI
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Rnor_5.02160,337,768 - 160,370,787 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008760993   ⟹   XP_008759215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760994   ⟹   XP_008759216
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,892,728 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760995   ⟹   XP_008759217
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760996   ⟹   XP_008759218
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
Rnor_6.02143,892,728 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760997   ⟹   XP_008759219
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,892,728 - 143,925,640 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760998   ⟹   XP_008759220
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
Rnor_6.02143,892,728 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760999   ⟹   XP_008759221
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,892,727 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761000   ⟹   XP_008759222
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
Rnor_6.02143,892,728 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761001   ⟹   XP_008759223
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
Rnor_6.02143,892,728 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017590966   ⟹   XP_017446455
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02143,893,050 - 143,925,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039102602   ⟹   XP_038958530
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,496 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102603   ⟹   XP_038958531
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102604   ⟹   XP_038958532
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,451 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102605   ⟹   XP_038958533
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102606   ⟹   XP_038958534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102607   ⟹   XP_038958535
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,496 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102608   ⟹   XP_038958536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102609   ⟹   XP_038958537
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,498 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102610   ⟹   XP_038958538
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102611   ⟹   XP_038958539
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102612   ⟹   XP_038958540
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102613   ⟹   XP_038958541
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,242 (+)NCBI
RefSeq Acc Id: XM_039102614   ⟹   XP_038958542
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,930,493 (+)NCBI
RefSeq Acc Id: XM_039102615   ⟹   XP_038958543
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,316 - 138,930,493 (+)NCBI
RefSeq Acc Id: XR_005500313
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,897,317 - 138,922,677 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001014192 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232400 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232404 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232406 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232407 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232408 (Get FASTA)   NCBI Sequence Viewer  
  XP_008759218 (Get FASTA)   NCBI Sequence Viewer  
  XP_008759220 (Get FASTA)   NCBI Sequence Viewer  
  XP_008759222 (Get FASTA)   NCBI Sequence Viewer  
  XP_008759223 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958530 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958531 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958532 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958533 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958534 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958535 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958536 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958537 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958538 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958539 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958540 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958541 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958542 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958543 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH81923 (Get FASTA)   NCBI Sequence Viewer  
  EDM14925 (Get FASTA)   NCBI Sequence Viewer  
  EDM14926 (Get FASTA)   NCBI Sequence Viewer  
  EDM14927 (Get FASTA)   NCBI Sequence Viewer  
  EDM14928 (Get FASTA)   NCBI Sequence Viewer  
  EDM14929 (Get FASTA)   NCBI Sequence Viewer  
  EDM14930 (Get FASTA)   NCBI Sequence Viewer  
  EDM14931 (Get FASTA)   NCBI Sequence Viewer  
  Q66HC7 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001014192   ⟸   NM_001014170
- UniProtKB: Q66HC7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006232407   ⟸   XM_006232345
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006232400   ⟸   XM_006232338
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006232403   ⟸   XM_006232341
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006232408   ⟸   XM_006232346
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006232404   ⟸   XM_006232342
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006232406   ⟸   XM_006232344
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008759217   ⟸   XM_008760995
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008759215   ⟸   XM_008760993
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008759221   ⟸   XM_008760999
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008759216   ⟸   XM_008760994
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008759219   ⟸   XM_008760997
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008759218   ⟸   XM_008760996
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008759220   ⟸   XM_008760998
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_008759222   ⟸   XM_008761000
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_008759223   ⟸   XM_008761001
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_017446455   ⟸   XM_017590966
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000075507   ⟸   ENSRNOT00000080443
RefSeq Acc Id: ENSRNOP00000070797   ⟸   ENSRNOT00000080026
RefSeq Acc Id: XP_038958531   ⟸   XM_039102603
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038958536   ⟸   XM_039102608
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038958533   ⟸   XM_039102605
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038958540   ⟸   XM_039102612
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038958543   ⟸   XM_039102615
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038958534   ⟸   XM_039102606
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038958538   ⟸   XM_039102610
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038958539   ⟸   XM_039102611
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038958542   ⟸   XM_039102614
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038958541   ⟸   XM_039102613
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038958532   ⟸   XM_039102604
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958530   ⟸   XM_039102602
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038958535   ⟸   XM_039102607
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038958537   ⟸   XM_039102609
- Peptide Label: isoform X4

Transcriptome

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

Promoters
RGD ID:13691327
Promoter ID:EPDNEW_R1852
Type:initiation region
Name:Supt20h_1
Description:SPT20 homolog, SAGA complex component
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_6.02143,892,688 - 143,892,748EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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)
ACI/EurMcwi (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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307812 AgrOrtholog
Ensembl Genes ENSRNOG00000059480 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000070797 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075507 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000080026 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080443 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7112766 IMAGE-MGC_LOAD
InterPro Spt20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361946 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93903 IMAGE-MGC_LOAD
NCBI Gene 361946 ENTREZGENE
PANTHER PTHR13526 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Spt20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Supt20h PhenoGen
UniProt A0A0G2JYU8_RAT UniProtKB/TrEMBL
  A0A0G2KAS5_RAT UniProtKB/TrEMBL
  Q66HC7 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-14 Supt20h  SPT20 homolog, SAGA complex component  Supt20  suppressor of Ty 20  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-02 Supt20  suppressor of Ty 20  Fam48a  family with sequence similarity 48, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Fam48a  family with sequence similarity 48, member A  RGD1307812  similar to transcription factor (p38 interacting protein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1307812  similar to transcription factor (p38 interacting protein)  RGD1307812_predicted  similar to transcription factor (p38 interacting protein) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1307812_predicted  similar to transcription factor (p38 interacting protein) (predicted)  LOC361946_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361946_predicted  similar to transcription factor (p38 interacting protein) (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL