Adamts6 (ADAM metallopeptidase with thrombospondin type 1 motif, 6) - Rat Genome Database

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Gene: Adamts6 (ADAM metallopeptidase with thrombospondin type 1 motif, 6) Rattus norvegicus
Analyze
Symbol: Adamts6
Name: ADAM metallopeptidase with thrombospondin type 1 motif, 6
RGD ID: 1307678
Description: Predicted to have metalloendopeptidase activity. Predicted to be involved in circulatory system development; extracellular matrix organization; and kidney development. Predicted to localize to extracellular matrix. Orthologous to human ADAMTS6 (ADAM metallopeptidase with thrombospondin type 1 motif 6); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: A disintegrin and metalloproteinase with thrombospondin motifs 6; a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6; a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 6; LOC361886
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
mRatBN7.2235,421,483 - 35,633,305 (+)NCBI
Rnor_6.0 Ensembl234,374,158 - 34,586,755 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0234,374,142 - 34,589,676 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0253,495,958 - 53,716,434 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4235,213,712 - 35,434,336 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1235,133,406 - 35,352,203 (+)NCBI
Celera231,397,794 - 31,599,803 (+)NCBICelera
Cytogenetic Map2q12NCBI
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

Molecular Function

References

Additional References at PubMed
PMID:8889548   PMID:25807483   PMID:30361391  


Genomics

Comparative Map Data
Adamts6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2235,421,483 - 35,633,305 (+)NCBI
Rnor_6.0 Ensembl234,374,158 - 34,586,755 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0234,374,142 - 34,589,676 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0253,495,958 - 53,716,434 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4235,213,712 - 35,434,336 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1235,133,406 - 35,352,203 (+)NCBI
Celera231,397,794 - 31,599,803 (+)NCBICelera
Cytogenetic Map2q12NCBI
ADAMTS6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl565,148,738 - 65,481,920 (-)EnsemblGRCh38hg38GRCh38
GRCh38565,148,736 - 65,482,663 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37564,444,565 - 64,777,747 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36564,480,319 - 64,813,460 (-)NCBINCBI36hg18NCBI36
Build 34564,480,321 - 64,530,348NCBI
Celera561,441,460 - 61,776,222 (-)NCBI
Cytogenetic Map5q12.3NCBI
HuRef561,399,229 - 61,733,640 (-)NCBIHuRef
CHM1_1564,444,425 - 64,777,413 (-)NCBICHM1_1
Adamts6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913104,423,026 - 104,633,203 (+)NCBIGRCm39mm39
GRCm39 Ensembl13104,424,343 - 104,633,203 (+)Ensembl
GRCm3813104,286,518 - 104,496,695 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13104,287,835 - 104,496,695 (+)EnsemblGRCm38mm10GRCm38
MGSCv3713105,077,953 - 105,284,843 (+)NCBIGRCm37mm9NCBIm37
MGSCv3613105,408,255 - 105,615,145 (+)NCBImm8
Celera13108,683,304 - 108,890,181 (+)NCBICelera
Cytogenetic Map13D1NCBI
Adamts6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554463,620,795 - 3,902,829 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554463,620,795 - 3,902,829 (+)NCBIChiLan1.0ChiLan1.0
ADAMTS6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1550,173,296 - 50,505,528 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl550,181,529 - 50,502,433 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0548,517,814 - 48,854,545 (+)NCBIMhudiblu_PPA_v0panPan3
ADAMTS6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1250,955,180 - 51,249,075 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl250,955,481 - 51,236,421 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha247,908,675 - 48,192,053 (-)NCBI
ROS_Cfam_1.0251,443,822 - 51,727,266 (-)NCBI
UMICH_Zoey_3.1248,498,253 - 48,787,512 (-)NCBI
UNSW_CanFamBas_1.0249,293,388 - 49,576,663 (-)NCBI
UU_Cfam_GSD_1.0250,181,510 - 50,468,796 (-)NCBI
Adamts6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213194,739,311 - 195,028,741 (+)NCBI
SpeTri2.0NW_0049364803,798,044 - 3,965,203 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ADAMTS6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1643,663,002 - 44,080,499 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11643,702,519 - 44,010,820 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21646,987,181 - 47,283,577 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ADAMTS6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1461,339,444 - 61,673,366 (-)NCBI
Vero_WHO_p1.0NW_0236660499,980,945 - 10,314,741 (-)NCBI
Adamts6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248154,427,297 - 4,727,991 (+)NCBI

Position Markers
RH142611  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2235,630,982 - 35,631,116 (+)MAPPER
Rnor_6.0234,587,358 - 34,587,491NCBIRnor6.0
Rnor_5.0253,714,116 - 53,714,249UniSTSRnor5.0
RGSC_v3.4235,432,437 - 35,432,570UniSTSRGSC3.4
Celera231,597,907 - 31,598,040UniSTS
RH 3.4 Map2155.7UniSTS
Cytogenetic Map2q13UniSTS
RH143095  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2235,509,264 - 35,509,559 (+)MAPPER
Rnor_6.0234,463,514 - 34,463,808NCBIRnor6.0
Rnor_5.0253,591,654 - 53,591,948UniSTSRnor5.0
RGSC_v3.4235,309,304 - 35,309,598UniSTSRGSC3.4
Celera231,475,974 - 31,476,268UniSTS
RH 3.4 Map2150.6UniSTS
Cytogenetic Map2q13UniSTS
BI301712  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2235,562,185 - 35,562,378 (+)MAPPER
Rnor_6.0234,518,552 - 34,518,744NCBIRnor6.0
Rnor_5.0253,645,227 - 53,645,419UniSTSRnor5.0
RGSC_v3.4235,363,101 - 35,363,293UniSTSRGSC3.4
Celera231,529,256 - 31,529,448UniSTS
RH 3.4 Map2155.5UniSTS
Cytogenetic Map2q13UniSTS
BM392312  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2235,622,363 - 35,622,528 (+)MAPPER
Rnor_6.0234,578,739 - 34,578,903NCBIRnor6.0
Rnor_5.0253,705,497 - 53,705,661UniSTSRnor5.0
RGSC_v3.4235,423,818 - 35,423,982UniSTSRGSC3.4
Celera231,589,288 - 31,589,452UniSTS
RH 3.4 Map2155.7UniSTS
Cytogenetic Map2q13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135167060Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141179397Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)23127638105149020Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2368630848686308Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2541733642777046Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2789360052893600Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)2944467949615930Rat
1578671Bmd10Bone mineral density QTL 105.4femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)2944467968866454Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21055527555555275Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21423783059237830Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21901646564016465Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22027698165276981Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22064137165641371Rat
7387318Stl32Serum triglyceride level QTL 323.20.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)22261295267612952Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22328064775687607Rat
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
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22618609783819822Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226186097135654963Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226186097142053534Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22626799543133606Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22626799548676716Rat
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
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22776030172760301Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)22872786752507805Rat
731179Mamtr3Mammary tumor resistance QTL 30.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)23122461243643900Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23127237976272379Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23408817591101903Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:54
Interacting mature miRNAs:58
Transcripts:ENSRNOT00000016997, ENSRNOT00000072577
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 8 1 10 3
Low 2 34 46 31 19 31 8 10 74 35 31 8 8
Below cutoff 1 1 10 10 10 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039102553 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005500311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CN542748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016997   ⟹   ENSRNOP00000016997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl234,374,158 - 34,586,755 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000072577   ⟹   ENSRNOP00000064275
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl234,546,988 - 34,586,755 (+)Ensembl
RefSeq Acc Id: NM_001108544   ⟹   NP_001102014
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,421,510 - 35,633,301 (+)NCBI
RefSeq Acc Id: XM_008760707   ⟹   XP_008758929
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0234,374,142 - 34,589,676 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760710   ⟹   XP_008758932
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0234,374,142 - 34,547,139 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591186   ⟹   XP_017446675
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,449,909 - 35,633,305 (+)NCBI
Rnor_6.0234,403,071 - 34,589,676 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591187   ⟹   XP_017446676
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,508,204 - 35,633,305 (+)NCBI
Rnor_6.0234,463,886 - 34,589,676 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591188   ⟹   XP_017446677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,521,282 - 35,633,305 (+)NCBI
Rnor_6.0234,476,116 - 34,589,676 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593685   ⟹   XP_017449174
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera231,397,794 - 31,599,803 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039102547   ⟹   XP_038958475
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,421,483 - 35,611,875 (+)NCBI
RefSeq Acc Id: XM_039102548   ⟹   XP_038958476
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,421,483 - 35,590,609 (+)NCBI
RefSeq Acc Id: XM_039102549   ⟹   XP_038958477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,449,909 - 35,633,305 (+)NCBI
RefSeq Acc Id: XM_039102550   ⟹   XP_038958478
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,449,982 - 35,633,305 (+)NCBI
RefSeq Acc Id: XM_039102551   ⟹   XP_038958479
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,449,909 - 35,633,305 (+)NCBI
RefSeq Acc Id: XM_039102552   ⟹   XP_038958480
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,508,209 - 35,633,305 (+)NCBI
RefSeq Acc Id: XM_039102553   ⟹   XP_038958481
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,421,483 - 35,575,064 (+)NCBI
RefSeq Acc Id: XR_005500311
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2235,421,483 - 35,602,936 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_008758929   ⟸   XM_008760707
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008758932   ⟸   XM_008760710
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017449174   ⟸   XM_017593685
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017446675   ⟸   XM_017591186
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017446676   ⟸   XM_017591187
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017446677   ⟸   XM_017591188
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000064275   ⟸   ENSRNOT00000072577
RefSeq Acc Id: ENSRNOP00000016997   ⟸   ENSRNOT00000016997
RefSeq Acc Id: XP_038958475   ⟸   XM_039102547
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038958476   ⟸   XM_039102548
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958481   ⟸   XM_039102553
- Peptide Label: isoform X8
RefSeq Acc Id: NP_001102014   ⟸   NM_001108544
RefSeq Acc Id: XP_038958477   ⟸   XM_039102549
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038958479   ⟸   XM_039102551
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038958478   ⟸   XM_039102550
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038958480   ⟸   XM_039102552
- Peptide Label: isoform X7
Protein Domains
Peptidase M12B   PLAC

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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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:1307678 AgrOrtholog
Ensembl Genes ENSRNOG00000012655 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016997 UniProtKB/TrEMBL
  ENSRNOP00000064275 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016997 UniProtKB/TrEMBL
  ENSRNOT00000072577 UniProtKB/TrEMBL
Gene3D-CATH 2.20.100.10 UniProtKB/TrEMBL
  3.40.390.10 UniProtKB/TrEMBL
InterPro ADAM_CR_2 UniProtKB/TrEMBL
  ADAM_spacer1 UniProtKB/TrEMBL
  ADAMTS/ADAMTS-like UniProtKB/TrEMBL
  MetalloPept_cat_dom UniProtKB/TrEMBL
  Peptidase_M12B UniProtKB/TrEMBL
  Peptidase_M12B_N UniProtKB/TrEMBL
  PLAC UniProtKB/TrEMBL
  Thrombospondin_1_rpt UniProtKB/TrEMBL
  TSP1_rpt_sf UniProtKB/TrEMBL
KEGG Report rno:361886 UniProtKB/TrEMBL
NCBI Gene 361886 ENTREZGENE
Pfam ADAM_CR_2 UniProtKB/TrEMBL
  ADAM_spacer1 UniProtKB/TrEMBL
  Pep_M12B_propep UniProtKB/TrEMBL
  PLAC UniProtKB/TrEMBL
  Reprolysin UniProtKB/TrEMBL
  TSP_1 UniProtKB/TrEMBL
PhenoGen Adamts6 PhenoGen
PRINTS ADAMTSFAMILY UniProtKB/TrEMBL
PROSITE ADAM_MEPRO UniProtKB/TrEMBL
  PLAC UniProtKB/TrEMBL
  TSP1 UniProtKB/TrEMBL
SMART TSP1 UniProtKB/TrEMBL
Superfamily-SCOP TSP1 UniProtKB/TrEMBL
UniProt D4A065_RAT UniProtKB/TrEMBL
  M0R4I8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-18 Adamts6  ADAM metallopeptidase with thrombospondin type 1 motif, 6  Adamts6  a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-10 Adamts6  a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6  Adamts6  a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-26 Adamts6  a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 6  Adamts6_predicted  a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 6 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Adamts6_predicted  a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED