Gene: LOC100911923 (uncharacterized LOC100911923) Rattus norvegicus
Analyze
Symbol:
LOC100911923
Name:
uncharacterized LOC100911923
Description:
Type:
ncrna
RefSeq Status:
MODEL
Latest Assembly:
Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl Rnor_6.0 6 77,375,776 - 77,416,950 (-) NCBI Rnor6.0 Rnor_6.0 rn6 Rnor6.0 Rnor_5.0 6 86,902,856 - 86,942,955 (-) NCBI Rnor5.0 Rnor_5.0 rn5 Rnor5.0 Celera 6 72,761,529 - 72,802,704 (-) NCBI Celera Cytogenetic Map 6 q23 NCBI
JBrowse:
View Region in Genome Browser (JBrowse)
Model
Genomics
Position Markers
RH141235
Rat Assembly Chr Position (strand) Source JBrowse Rnor_6.0 6 77,417,438 - 77,417,618 NCBI Rnor6.0 Rnor_5.0 6 86,944,566 - 86,944,746 UniSTS Rnor5.0 RGSC_v3.4 6 76,916,285 - 76,916,465 UniSTS RGSC3.4 Celera 6 72,803,189 - 72,803,369 UniSTS
QTLs in Region (Rnor_6.0)
1576309 Emca7 Estrogen-induced mammary cancer QTL 7 4 mammary gland integrity trait (VT:0010552) mammary tumor number (CMO:0000343) 6 2537030 111715717 Rat 4145119 Mcs25 Mammary carcinoma susceptibility QTL 25 0.0001 mammary gland integrity trait (VT:0010552) percentage of deaths in a study population during a period of time (CMO:0001024) 6 7009971 115379601 Rat 2293839 Kiddil2 Kidney dilation QTL 2 4.8 kidney pelvis morphology trait (VT:0004194) hydronephrosis severity score (CMO:0001208) 6 22042854 84763421 Rat 2293841 Kiddil4 Kidney dilation QTL 4 4.4 kidney pelvis morphology trait (VT:0004194) hydronephrosis severity score (CMO:0001208) 6 22042854 84763421 Rat 1300143 Rf14 Renal function QTL 14 2.92 renal blood flow trait (VT:2000006) absolute change in renal blood flow rate (CMO:0001168) 6 34367436 80490628 Rat 6893340 Cm77 Cardiac mass QTL 77 0.26 0.57 heart mass (VT:0007028) heart weight to body weight ratio (CMO:0000074) 6 36260288 84763275 Rat 634307 Bp141 Blood pressure QTL 141 4 arterial blood pressure trait (VT:2000000) systolic blood pressure (CMO:0000004) 6 38106308 83106308 Rat 9590290 Uminl2 Urine mineral level QTL 2 3.96 0.001 urine mineral amount (VT:0015086) urine electrolyte level (CMO:0000593) 6 41679046 86679046 Rat 9590306 Scort18 Serum corticosterone level QTL 18 2.88 0.001 blood corticosterone amount (VT:0005345) plasma corticosterone level (CMO:0001173) 6 41679046 86679046 Rat 9590140 Scort4 Serum corticosterone level QTL 4 14.49 0.001 blood corticosterone amount (VT:0005345) plasma corticosterone level (CMO:0001173) 6 41679046 86679046 Rat 634330 Pia16 Pristane induced arthritis QTL 16 3.9 joint integrity trait (VT:0010548) arthritic paw count (CMO:0001460) 6 48432758 108268790 Rat 4889848 Pur25 Proteinuria QTL 25 14 0.003 total urine protein amount (VT:0000032) urine total protein excretion rate (CMO:0000756) 6 59803065 94001333 Rat 1558641 Cm47 Cardiac mass QTL 47 2.9 0.001 heart mass (VT:0007028) heart wet weight (CMO:0000069) 6 60606431 108154445 Rat 6893332 Cm74 Cardiac mass QTL 74 0.4 0.64 heart mass (VT:0007028) heart weight to body weight ratio (CMO:0000074) 6 60606431 108154445 Rat 70176 Mcsm1 Mammary carcinoma susceptibility modifier QTL 1 mammary gland integrity trait (VT:0010552) mammary tumor number (CMO:0000343) 6 62263348 107263348 Rat 12801471 Schws9 Schwannoma susceptibility QTL 9 nervous system integrity trait (VT:0010566) percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017) 6 66129520 111129520 Rat 731173 Uae22 Urinary albumin excretion QTL 22 10.1 urine albumin amount (VT:0002871) urine albumin excretion rate (CMO:0000757) 6 68781170 147991367 Rat 2290393 Uae37 Urinary albumin excretion QTL 37 0.0001 urine albumin amount (VT:0002871) urine albumin excretion rate (CMO:0000757) 6 68781170 147991367 Rat 1641904 Alcrsp4 Alcohol response QTL 4 response to alcohol trait (VT:0010489) duration of loss of righting reflex (CMO:0002289) 6 71206251 116206251 Rat 1300075 Glom7 Glomerulus QTL 7 5.6 0.0000002 kidney glomerulus morphology trait (VT:0005325) count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002) 6 75449871 120449871 Rat 1331789 Rf37 Renal function QTL 37 3.224 kidney blood vessel physiology trait (VT:0100012) absolute change in renal vascular resistance (CMO:0001900) 6 75623277 120276465 Rat 70196 BpQTLcluster7 Blood pressure QTL cluster 7 6.82 arterial blood pressure trait (VT:2000000) systolic blood pressure (CMO:0000004) 6 75623277 120623277 Rat 724536 Uae7 Urinary albumin excretion QTL 7 3.5 urine albumin amount (VT:0002871) urine albumin level (CMO:0000130) 6 75623277 136143011 Rat 1331799 Bp211 Blood pressure QTL 211 3.66407 arterial blood pressure trait (VT:2000000) mean arterial blood pressure (CMO:0000009) 6 75623277 136426962 Rat 2301964 Bp323 Blood pressure QTL 323 4.3 arterial blood pressure trait (VT:2000000) systolic blood pressure (CMO:0000004) 6 75623393 84763275 Rat 1581550 Pur8 Proteinuria QTL 8 total urine protein amount (VT:0000032) urine total protein excretion rate (CMO:0000756) 6 75623393 136142742 Rat 1581563 Uae33 Urinary albumin excretion QTL 33 urine albumin amount (VT:0002871) urine albumin excretion rate (CMO:0000757) 6 75623393 136142742 Rat 724524 Uae2 Urinary albumin excretion QTL 2 2.7 0.0005 urine albumin amount (VT:0002871) urine albumin excretion rate (CMO:0000757) 6 76902247 114203334 Rat
Expression
Sequence
Nucleotide Sequences
Reference Sequences
RefSeq Acc Id:
XR_001838424
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,950 (-) NCBI
Sequence:
TTTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACA
hide sequence
RefSeq Acc Id:
XR_001838425
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,948 (-) NCBI
Sequence:
TTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGT
hide sequence
RefSeq Acc Id:
XR_001838426
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,947 (-) NCBI
Sequence:
TTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTG
hide sequence
RefSeq Acc Id:
XR_001838427
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,949 (-) NCBI
Sequence:
TTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAG
hide sequence
RefSeq Acc Id:
XR_001838428
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,948 (-) NCBI
Sequence:
TTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGT
hide sequence
RefSeq Acc Id:
XR_001838429
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,947 (-) NCBI
Sequence:
TTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTG
hide sequence
RefSeq Acc Id:
XR_001838430
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,948 (-) NCBI
Sequence:
TTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGT
hide sequence
RefSeq Acc Id:
XR_001838431
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,945 (-) NCBI
Sequence:
AAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGCC
hide sequence
RefSeq Acc Id:
XR_001838432
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,410,539 (-) NCBI
Sequence:
ACTTTAAAAAAGAAAAGAAAAGAAAAGAAAATCCAAACCAAAGGATACCACAGCTGTTCGATGG
hide sequence
RefSeq Acc Id:
XR_001844041
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,697 (-) NCBI
Sequence:
TAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGC
hide sequence
RefSeq Acc Id:
XR_001844042
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,695 (-) NCBI
Sequence:
AGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGCCC
hide sequence
RefSeq Acc Id:
XR_001844043
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,701 (-) NCBI
Sequence:
TTTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACA
hide sequence
RefSeq Acc Id:
XR_001844044
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,700 (-) NCBI
Sequence:
TTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAG
hide sequence
RefSeq Acc Id:
XR_001844045
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,700 (-) NCBI
Sequence:
TTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAG
hide sequence
RefSeq Acc Id:
XR_001844046
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,700 (-) NCBI
Sequence:
TTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAG
hide sequence
RefSeq Acc Id:
XR_001844047
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,699 (-) NCBI
Sequence:
TTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGT
hide sequence
RefSeq Acc Id:
XR_001844048
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,698 (-) NCBI
Sequence:
TTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTG
hide sequence
RefSeq Acc Id:
XR_001844049
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,704 (-) NCBI
Sequence:
TTGTTTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTT
hide sequence
RefSeq Acc Id:
XR_001844050
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,698 (-) NCBI
Sequence:
TTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTG
hide sequence
RefSeq Acc Id:
XR_001844051
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,801,768 (-) NCBI
Sequence:
GTAGAACAAATGCCCTAGAAACTGCCCCCTGACAAGTATCCCACTCAACTCCAGGCCGCGATGG
hide sequence
RefSeq Acc Id:
XR_001844052
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,697 (-) NCBI
Sequence:
TAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGC
hide sequence
RefSeq Acc Id:
XR_001844053
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,796,290 (-) NCBI
Sequence:
ACTTTAAAAAAGAAAAGAAAAGAAAAGAAAATCCAAACCAAAGGATACCACAGCTGTTCGATGG
hide sequence
RefSeq Acc Id:
XR_347254
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Celera 6 72,761,529 - 72,802,696 (-) NCBI
Sequence:
AAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGCC
hide sequence
RefSeq Acc Id:
XR_354830
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,945 (-) NCBI Rnor_5.0 6 86,902,856 - 86,942,955 (-) NCBI
Sequence:
AAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGCC
hide sequence
RefSeq Acc Id:
XR_593033
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,943 (-) NCBI
Sequence:
GTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAGTGCCCG
hide sequence
RefSeq Acc Id:
XR_593034
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,416,949 (-) NCBI
Sequence:
TTTTAAGTATGGACTTGAATATGACAGTCTTTTCACTGATGTCCAGGGAATTTCTACCTTACAG
hide sequence
RefSeq Acc Id:
XR_593037
RefSeq Status:
Type:
NON-CODING
Position:
Rat Assembly Chr Position (strand) Source Rnor_6.0 6 77,375,776 - 77,415,918 (-) NCBI
Sequence:
CCTCTTTGCTCCTCTCCCCCACCCCACCCCAACCCCGCCGTGTAAACACGAGGACTTTCTCGAG
hide sequence
Strain Variation
Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
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:
Charles River Laboratories
Description:
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
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)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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)
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)
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)
Sequenced By:
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
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
External Database Links
Nomenclature History
Date
Current Symbol
Current Name
Previous Symbol
Previous Name
Description
Reference
Status
2012-07-05
LOC100911923
uncharacterized LOC100911923
Symbol and Name status set to provisional
70820 PROVISIONAL
RGD Object Information
RGD ID:
6489654
Created:
2012-07-05
Species:
Rattus norvegicus
Last Modified:
2019-08-20
Status:
ACTIVE
Nucleotide Sequences
