Tsc22d4 (TSC22 domain family, member 4) - Rat Genome Database

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Gene: Tsc22d4 (TSC22 domain family, member 4) Rattus norvegicus
Analyze
Symbol: Tsc22d4
Name: TSC22 domain family, member 4
RGD ID: 1584380
Description: Predicted to be involved in response to osmotic stress. Predicted to localize to cytoplasm and nucleus. Orthologous to human TSC22D4 (TSC22 domain family member 4); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC102550456; MGC125073; similar to TSC22 domain family protein 4 (TSC22-related-inducible leucine zipper protein 2); thg-1pit; Tilz2; TSC22 domain family protein 4; TSC22 domain family protein 4-like; TSC22-related-inducible leucine zipper protein 2; uncharacterized protein C7orf61 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
mRatBN7.21218,939,150 - 18,952,008 (-)NCBI
Rnor_6.0 Ensembl1222,009,011 - 22,021,851 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1221,722,075 - 21,761,487 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01222,008,956 - 22,021,814 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01224,017,638 - 24,039,147 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41219,814,586 - 19,826,254 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1220,744,972 - 20,757,750 (-)NCBICelera
Cytogenetic Map12q12NCBI
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

Biological Process

Cellular Component
cytoplasm  (ISO)
nucleus  (ISO)

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:15057822   PMID:17147695   PMID:19084601  


Genomics

Comparative Map Data
Tsc22d4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21218,939,150 - 18,952,008 (-)NCBI
Rnor_6.0 Ensembl1222,009,011 - 22,021,851 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1221,722,075 - 21,761,487 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01222,008,956 - 22,021,814 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01224,017,638 - 24,039,147 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41219,814,586 - 19,826,254 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1220,744,972 - 20,757,750 (-)NCBICelera
Cytogenetic Map12q12NCBI
TSC22D4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7100,463,359 - 100,479,232 (-)EnsemblGRCh38hg38GRCh38
GRCh387100,466,519 - 100,479,214 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh377100,064,142 - 100,076,837 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36799,902,078 - 99,914,838 (-)NCBINCBI36hg18NCBI36
Celera794,793,941 - 94,806,701 (-)NCBI
Cytogenetic Map7q22.1NCBI
HuRef794,697,543 - 94,710,215 (-)NCBIHuRef
CHM1_1799,994,757 - 100,007,518 (-)NCBICHM1_1
CRA_TCAGchr7v2799,424,226 - 99,436,987 (-)NCBI
Tsc22d4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395137,744,231 - 137,766,715 (+)NCBIGRCm39mm39
GRCm39 Ensembl5137,743,992 - 137,766,712 (+)Ensembl
GRCm385137,745,969 - 137,768,453 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5137,745,730 - 137,768,450 (+)EnsemblGRCm38mm10GRCm38
MGSCv375138,187,224 - 138,200,975 (+)NCBIGRCm37mm9NCBIm37
MGSCv365137,975,784 - 137,989,539 (+)NCBImm8
Celera5134,732,531 - 134,746,249 (+)NCBICelera
Cytogenetic Map5G2NCBI
Tsc22d4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955573415,826 - 429,105 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955573414,984 - 425,480 (+)NCBIChiLan1.0ChiLan1.0
TSC22D4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17105,887,295 - 105,909,981 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7105,896,307 - 105,909,967 (-)Ensemblpanpan1.1panPan2
PanPan1.1 Ensembl7105,887,295 - 105,894,117 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0792,495,407 - 92,508,204 (-)NCBIMhudiblu_PPA_v0panPan3
TSC22D4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.169,196,199 - 9,206,929 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl69,197,197 - 9,211,885 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha610,900,933 - 10,911,479 (+)NCBI
ROS_Cfam_1.069,130,449 - 9,140,993 (+)NCBI
UMICH_Zoey_3.168,982,924 - 8,993,466 (+)NCBI
UNSW_CanFamBas_1.068,960,443 - 8,971,023 (+)NCBI
UU_Cfam_GSD_1.069,142,821 - 9,153,385 (+)NCBI
Tsc22d4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344133,486,985 - 133,497,302 (+)NCBI
SpeTri2.0NW_004936543539,222 - 549,542 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100514038
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl38,390,945 - 8,406,218 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.138,390,945 - 8,406,240 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.237,734,046 - 7,750,006 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TSC22D4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12812,729,798 - 12,744,222 (+)NCBI
ChlSab1.1 Ensembl2812,730,714 - 12,745,483 (+)Ensembl
Tsc22d4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474016,582,726 - 16,598,477 (+)NCBI

Position Markers
RH133351  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01221,748,808 - 21,749,009NCBIRnor6.0
Rnor_6.01222,009,162 - 22,009,363NCBIRnor6.0
Rnor_5.01224,026,448 - 24,026,649UniSTSRnor5.0
Rnor_5.01223,769,676 - 23,769,877UniSTSRnor5.0
RGSC_v3.41219,825,869 - 19,826,070UniSTSRGSC3.4
Celera1220,745,178 - 20,745,379UniSTS
Cytogenetic Map12q12UniSTS
RH142348  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01222,009,123 - 22,009,309NCBIRnor6.0
Rnor_6.01221,748,769 - 21,748,955NCBIRnor6.0
Rnor_5.01224,026,409 - 24,026,595UniSTSRnor5.0
Rnor_5.01223,769,637 - 23,769,823UniSTSRnor5.0
RGSC_v3.41219,825,923 - 19,826,109UniSTSRGSC3.4
Celera1220,745,139 - 20,745,325UniSTS
RH 3.4 Map12263.8UniSTS
Cytogenetic Map12q12UniSTS
RH143037  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01222,016,325 - 22,016,582NCBIRnor6.0
Rnor_6.01221,755,971 - 21,756,228NCBIRnor6.0
Rnor_5.01224,033,611 - 24,033,868UniSTSRnor5.0
Rnor_5.01223,776,839 - 23,777,096UniSTSRnor5.0
RGSC_v3.41219,818,650 - 19,818,907UniSTSRGSC3.4
Celera1220,752,342 - 20,752,599UniSTS
RH 3.4 Map12264.3UniSTS
Cytogenetic Map12q12UniSTS
RH136799  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01221,740,404 - 21,740,525NCBIRnor6.0
Rnor_6.01222,000,913 - 22,001,034NCBIRnor6.0
Rnor_5.01224,017,961 - 24,018,082UniSTSRnor5.0
Rnor_5.01223,761,272 - 23,761,393UniSTSRnor5.0
RGSC_v3.41219,834,353 - 19,834,474UniSTSRGSC3.4
Celera1220,736,866 - 20,736,987UniSTS
RH 3.4 Map12268.1UniSTS
Cytogenetic Map12q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12122650917Rat
10450854Stl34Serum triglyceride level QTL 343.50.05blood LDL triglyceride amount (VT:0010699)blood lipoprotein triglyceride level (CMO:0002685)12122853017Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12123035872Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123758197Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12130749723Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12136919844Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12138334225Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)1215081045150810Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1215081045150810Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)1249257845492578Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12247568747475687Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12251344247513442Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12251344247513442Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12421005149210051Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12895459327911196Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6922362652716770Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922363052716770Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12978983452716770Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121017588931975590Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)121025689031723732Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)121176499537522089Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121312721127285590Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121312721131723688Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121312721150320041Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121441977552716770Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)121502198652716770Rat
7204484Bp358Blood pressure QTL 3580.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121508558522283507Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121571460935964508Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121571460941291738Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121590890052716770Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121590890052716770Rat
61443Btemp2Thermal response to stress QTL 23.30.000094body temperature trait (VT:0005535)core body temperature (CMO:0001036)121711477023839390Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121718558044098244Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)121796086538409001Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121834247752716770Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121834247752716770Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121872904352716770Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121875259352716770Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101875259352716770Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:63
Interacting mature miRNAs:74
Transcripts:ENSRNOT00000059592
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001869   ⟹   ENSRNOP00000001869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1221,740,057 - 21,746,236 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000039280   ⟹   ENSRNOP00000033658
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1222,009,011 - 22,021,851 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000059592   ⟹   ENSRNOP00000056350
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1221,748,633 - 21,760,292 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082910   ⟹   ENSRNOP00000071995
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1221,722,075 - 21,761,487 (-)Ensembl
RefSeq Acc Id: NM_001044284   ⟹   NP_001037749
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21218,939,150 - 18,952,008 (-)NCBI
Rnor_6.01222,008,956 - 22,021,814 (-)NCBI
Rnor_5.01224,017,638 - 24,039,147 (-)NCBI
RGSC_v3.41219,814,586 - 19,826,254 (+)RGD
Celera1220,744,972 - 20,757,750 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001037749 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI05912 (Get FASTA)   NCBI Sequence Viewer  
  EDM13242 (Get FASTA)   NCBI Sequence Viewer  
  Q3B8N7 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001037749   ⟸   NM_001044284
- UniProtKB: Q3B8N7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000033658   ⟸   ENSRNOT00000039280
RefSeq Acc Id: ENSRNOP00000056350   ⟸   ENSRNOT00000059592
RefSeq Acc Id: ENSRNOP00000071995   ⟸   ENSRNOT00000082910
RefSeq Acc Id: ENSRNOP00000001869   ⟸   ENSRNOT00000001869

Transcriptome

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

Promoters
RGD ID:13698508
Promoter ID:EPDNEW_R9033
Type:multiple initiation site
Name:Tsc22d4_2
Description:TSC22 domain family, member 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9034  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01222,021,602 - 22,021,662EPDNEW
RGD ID:13698509
Promoter ID:EPDNEW_R9034
Type:initiation region
Name:Tsc22d4_1
Description:TSC22 domain family, member 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9033  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01222,021,763 - 22,021,823EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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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:1584380 AgrOrtholog
  RGD:7605479 AgrOrtholog
Ensembl Genes ENSRNOG00000024616 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00000050805 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000033658 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000056350 UniProtKB/Swiss-Prot
  ENSRNOP00000071995 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000039280 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000059592 UniProtKB/Swiss-Prot
  ENSRNOT00000082910 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7387593 IMAGE-MGC_LOAD
InterPro DUF4703 UniProtKB/TrEMBL
  TSC-22_Dip_Bun UniProtKB/Swiss-Prot
  TSC22D4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:102550456 UniProtKB/Swiss-Prot
  rno:684980 UniProtKB/Swiss-Prot
MGC_CLONE MGC:125073 IMAGE-MGC_LOAD
NCBI Gene 684980 ENTREZGENE
PANTHER PTHR47610 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF4703 UniProtKB/TrEMBL
  TSC22 UniProtKB/Swiss-Prot
PhenoGen Tsc22d4 PhenoGen
PROSITE TSC22 UniProtKB/Swiss-Prot
UniProt A0A0G2K1V1_RAT UniProtKB/TrEMBL
  Q3B8N7 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tsc22d4  TSC22 domain family, member 4  LOC102550456  TSC22 domain family protein 4-like  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102550456  TSC22 domain family protein 4-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-07-08 Tsc22d4  TSC22 domain family, member 4  LOC686226  similar to TSC22 domain family protein 4 (TSC22-related-inducible leucine zipper protein 2)  Data Merged 1643240 APPROVED
2008-03-06 Tsc22d4  TSC22 domain family, member 4  MGC125073  similar to TSC22 domain family protein 4 (TSC22-related-inducible leucine zipper protein 2)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 MGC125073  similar to TSC22 domain family protein 4 (TSC22-related-inducible leucine zipper protein 2)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC686226  similar to TSC22 domain family protein 4 (TSC22-related-inducible leucine zipper protein 2)      Symbol and Name status set to provisional 70820 PROVISIONAL