N6amt1 (N-6 adenine-specific DNA methyltransferase 1) - Rat Genome Database

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Gene: N6amt1 (N-6 adenine-specific DNA methyltransferase 1) Rattus norvegicus
Analyze
Symbol: N6amt1
Name: N-6 adenine-specific DNA methyltransferase 1
RGD ID: 1311843
Description: Predicted to have S-adenosyl-L-methionine binding activity and S-adenosylmethionine-dependent methyltransferase activity. Predicted to be involved in several processes, including arsonoacetate metabolic process; macromolecule methylation; and positive regulation of cell growth. Predicted to localize to eRF1 methyltransferase complex and nucleus. Orthologous to human N6AMT1 (N-6 adenine-specific DNA methyltransferase 1); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: HemK methyltransferase family member 2; Hemk2; LOC288309; methyltransferase N6AMT1; N(6)-adenine-specific DNA methyltransferase 1; N-6 adenine-specific DNA methyltransferase 1 (putative); RGD1311843; similar to N6-DNA-methyltransferase isoform 1
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
mRatBN7.21126,584,750 - 26,597,790 (+)NCBI
Rnor_6.0 Ensembl1127,004,320 - 27,016,941 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01127,004,335 - 27,016,690 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01130,629,574 - 30,641,929 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41127,107,106 - 27,119,552 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11127,107,109 - 27,119,546 (+)NCBI
Celera1126,337,923 - 26,356,638 (+)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:18539146   PMID:19116772   PMID:25997655   PMID:26797129   PMID:30017583  


Genomics

Comparative Map Data
N6amt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21126,584,750 - 26,597,790 (+)NCBI
Rnor_6.0 Ensembl1127,004,320 - 27,016,941 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01127,004,335 - 27,016,690 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01130,629,574 - 30,641,929 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41127,107,106 - 27,119,552 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11127,107,109 - 27,119,546 (+)NCBI
Celera1126,337,923 - 26,356,638 (+)NCBICelera
Cytogenetic Map11q11NCBI
N6AMT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2128,872,191 - 28,885,371 (-)EnsemblGRCh38hg38GRCh38
GRCh382128,439,661 - 28,885,367 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372130,244,513 - 30,257,689 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362129,166,384 - 29,179,564 (-)NCBINCBI36hg18NCBI36
Celera2115,427,774 - 15,440,965 (-)NCBI
Cytogenetic Map21q21.3NCBI
HuRef2115,649,537 - 15,662,924 (-)NCBIHuRef
CHM1_12129,806,890 - 29,820,072 (-)NCBICHM1_1
N6amt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391687,151,073 - 87,165,537 (+)NCBIGRCm39mm39
GRCm39 Ensembl1687,151,073 - 87,165,630 (+)Ensembl
GRCm381687,354,185 - 87,368,649 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1687,354,185 - 87,368,742 (+)EnsemblGRCm38mm10GRCm38
MGSCv371687,354,430 - 87,368,894 (+)NCBIGRCm37mm9NCBIm37
MGSCv361687,243,381 - 87,257,845 (+)NCBImm8
Celera1687,539,465 - 87,553,925 (+)NCBICelera
Cytogenetic Map16C3.3NCBI
N6amt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540728,256,649 - 28,276,460 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540728,256,654 - 28,277,514 (+)NCBIChiLan1.0ChiLan1.0
N6AMT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12128,691,847 - 28,704,745 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2128,694,294 - 28,704,745 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02115,303,430 - 15,316,596 (-)NCBIMhudiblu_PPA_v0panPan3
N6AMT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13123,895,558 - 23,934,183 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3123,895,584 - 23,909,940 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3123,888,155 - 23,926,785 (+)NCBI
ROS_Cfam_1.03124,008,039 - 24,046,658 (+)NCBI
UMICH_Zoey_3.13123,959,405 - 23,997,823 (+)NCBI
UNSW_CanFamBas_1.03123,961,154 - 23,999,634 (+)NCBI
UU_Cfam_GSD_1.03124,432,448 - 24,471,137 (+)NCBI
N6amt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497124,368,003 - 24,381,211 (+)NCBI
SpeTri2.0NW_00493650013,086,873 - 13,099,814 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
N6AMT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13192,249,246 - 192,265,629 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113192,248,511 - 192,265,923 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213202,558,051 - 202,782,210 (+)NCBISscrofa10.2Sscrofa10.2susScr3
N6AMT1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1263,348,897 - 63,363,709 (+)NCBI
ChlSab1.1 Ensembl263,348,745 - 63,363,090 (+)Ensembl
N6amt1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474516,908,683 - 16,922,941 (+)NCBI

Position Markers
RH129651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21126,603,661 - 26,603,873 (+)MAPPER
Rnor_6.01127,023,087 - 27,023,298NCBIRnor6.0
Rnor_5.01130,648,326 - 30,648,537UniSTSRnor5.0
RGSC_v3.41127,126,017 - 27,126,228UniSTSRGSC3.4
Celera1126,356,114 - 26,356,325UniSTS
RH 3.4 Map11123.8UniSTS
Cytogenetic Map11q11UniSTS
RH131197  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21126,592,478 - 26,592,628 (+)MAPPER
Rnor_6.01127,012,064 - 27,012,213NCBIRnor6.0
Rnor_5.01130,637,303 - 30,637,452UniSTSRnor5.0
RGSC_v3.41127,114,835 - 27,114,984UniSTSRGSC3.4
Celera1126,345,649 - 26,345,798UniSTS
RH 3.4 Map11134.5UniSTS
Cytogenetic Map11q11UniSTS
RH144456  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21126,604,075 - 26,604,229 (+)MAPPER
Rnor_6.01127,023,501 - 27,023,654NCBIRnor6.0
Rnor_5.01130,648,740 - 30,648,893UniSTSRnor5.0
RGSC_v3.41127,126,431 - 27,126,584UniSTSRGSC3.4
Celera1126,356,528 - 26,356,681UniSTS
RH 3.4 Map11134.5UniSTS
Cytogenetic Map11q11UniSTS
BI281238  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21126,604,016 - 26,604,189 (+)MAPPER
Rnor_6.01127,023,442 - 27,023,614NCBIRnor6.0
Rnor_5.01130,648,681 - 30,648,853UniSTSRnor5.0
RGSC_v3.41127,126,372 - 27,126,544UniSTSRGSC3.4
Celera1126,356,469 - 26,356,641UniSTS
RH 3.4 Map11136.6UniSTS
Cytogenetic Map11q11UniSTS
BF417415  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21126,596,964 - 26,597,164 (+)MAPPER
Rnor_6.01127,016,458 - 27,016,657NCBIRnor6.0
Rnor_5.01130,641,697 - 30,641,896UniSTSRnor5.0
RGSC_v3.41127,119,320 - 27,119,519UniSTSRGSC3.4
RH 3.4 Map11136.4UniSTS
Cytogenetic Map11q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11133867429Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11172720192Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)1132503169342559Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11935127454351274Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111136730644444347Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111632197346583360Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111947517979734728Rat
1598811Bp291Blood pressure QTL 2911.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)112194422966944229Rat
1598841Memor7Memory QTL 7exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)112194422966944229Rat
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)112204314944444112Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112540112970401129Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112572003870720038Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112572003870720038Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:93
Interacting mature miRNAs:99
Transcripts:ENSRNOT00000002182
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 35 32 27 6 27 2 64 35 38 7
Low 8 25 14 13 14 8 9 10 3 4 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002182   ⟹   ENSRNOP00000002182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1127,004,320 - 27,016,941 (+)Ensembl
RefSeq Acc Id: NM_001191592   ⟹   NP_001178521
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21126,584,750 - 26,597,197 (+)NCBI
Rnor_6.01127,004,335 - 27,016,690 (+)NCBI
Rnor_5.01130,629,574 - 30,641,929 (+)NCBI
Celera1126,337,923 - 26,356,638 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088225   ⟹   XP_038944153
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21126,584,874 - 26,597,790 (+)NCBI
RefSeq Acc Id: XM_039088226   ⟹   XP_038944154
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21126,584,999 - 26,597,790 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001178521 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944153 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944154 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10637 (Get FASTA)   NCBI Sequence Viewer  
  EDM10638 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001178521   ⟸   NM_001191592
- UniProtKB: D4ACA2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002182   ⟸   ENSRNOT00000002182
RefSeq Acc Id: XP_038944153   ⟸   XM_039088225
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038944154   ⟸   XM_039088226
- Peptide Label: isoform X1
Protein Domains
MTS

Transcriptome

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

Promoters
RGD ID:13698019
Promoter ID:EPDNEW_R8543
Type:initiation region
Name:N6amt1_1
Description:N-6 adenine-specific DNA methyltransferase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01127,004,319 - 27,004,379EPDNEW

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)
Visual CSV TAB Printer
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)
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
F344/NRrrc (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
FHH/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)
FHH/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
FHL/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)
FHL/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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
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:1311843 AgrOrtholog
Ensembl Genes ENSRNOG00000001603 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002182 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002182 ENTREZGENE, UniProtKB/TrEMBL
InterPro DNA_methylase_N6_adenine_CS UniProtKB/TrEMBL
  HemK_rel_arch UniProtKB/TrEMBL
  SAM-dependent_MTases-like UniProtKB/TrEMBL
  Small_mtfrase_dom UniProtKB/TrEMBL
KEGG Report rno:288309 UniProtKB/TrEMBL
NCBI Gene 288309 ENTREZGENE
Pfam MTS UniProtKB/TrEMBL
PhenoGen N6amt1 PhenoGen
PROSITE N6_MTASE UniProtKB/TrEMBL
Superfamily-SCOP SSF53335 UniProtKB/TrEMBL
TIGRFAMs hemK_rel_arch UniProtKB/TrEMBL
UniProt D4ACA2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-23 N6amt1  N-6 adenine-specific DNA methyltransferase 1  N6amt1  N-6 adenine-specific DNA methyltransferase 1 (putative)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 N6amt1  N-6 adenine-specific DNA methyltransferase 1 (putative)  Hemk2_predicted  HemK methyltransferase family member 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Hemk2_predicted  HemK methyltransferase family member 2 (predicted)  RGD1311843_predicted  similar to N6-DNA-methyltransferase isoform 1 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1311843_predicted  similar to N6-DNA-methyltransferase isoform 1 (predicted)  LOC288309_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC288309_predicted  similar to N6-DNA-methyltransferase isoform 1 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL