MD13G1186800.v1.1

Putative RNA methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0003646
Physical Location & Seq
Forward (+)
15909185 .. 15913388
4204 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1186800.v1.1.491

Sequence Viewer

Length: 1044 bp
ATGGGGAAGAAGAAGAAGAGAGCCGAATCAGAAGCAGAAGCACAACCAGAAGAGAACAAAGTCGAAATTGTGAATGGCGACTCTCATCAGAAAGATAAGAAGAAGAAGAAGCACAAATTCGACGGACCCGCCGTGATACCTTCCGTGAGCATAGCCGTCCCCGGTTCAATCATCGACAACACTCAATCCCTCGAACTCGCCACCCGATTGGCCAGTCAGATTGCCCGTGCCGCGACGATTTTCCGAATCGACGAGGTGGTGATATTTGACAATAAGAGTGAGTCTGGCTCATTGCCACAAGCTGATTCGGATGAGAATGAAAGCGGTGCTGCTTTTCTTGTACGAATCTTGAGGTACCTTGAGACACCTCAGTATTTGAGAAAAGCTCTGTTTCCAAAACACAACAGCCTAAGATTTGTGGGCATGTTACCCCCGCTTGATGCTCCGCACCATCTGCGCAAACATGAATGGGGTCCATTTCGGGAAGGTGTCACACTGAAAGAAAGACCTCCCAACCTTGTGGGAACACTAGTTGATGTGGGCTTGAGTAAGAATGCCATTGTTGATCAAGTACTTGATCCTGGAACAAGAGTTACTGTAGCTATGGGAGCCAGTTGGAACTTGGATGCTGATATATCACGCCAGGTTGTCTCATCCTCCAAACCTAGGGAAGAAGCAGGAACATATTGGGGGTACAAAGTGCGCTATGCTTCTAATATTACTTCAGTCATGAATGAATGCCCATACAAGGGTGGCTATGACCATTCAATTGGTACCTCAGAGCATGGTCAGATTATTAATTCCTCTGAGCTCACTGTACCTACTTTCAGGCATCTATTGATTGCTTTTGGTGGACTTGCTGGGTTGGAAGAGAGCGTTGAAGAGGATGCTAACCTAAAGGCAAAAAATGTGAGAGAGGTATTTGATTTGTATTTGAACACATGCCCGCATCAGGGGAGTCGAACAATTCGAACTGAGGAAGCCATTCTCATATCTCTTCAGTATTTCCAAGAACCAATCAGCCGAGCATTGAAGAGAATTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Methyltrn_RNA_3

Protein Analysis

348

Amino Acids

38.53

Weight (kDa)

7.17

Isoelectric Point (pI)

42.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Methyltrn_RNA_3 PF02598 49 - 335 3e-110 Putative RNA methyltransferase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 458
Acc65I GGTACC 2 cut(s) 354, 773
AccB1I GGYRCC 2 cut(s) 354, 773
AccII CGCG 1 cut(s) 233
AciI CCGC 6 cut(s) 129, 231, 324, 434, 446, 947
AclWI GGATC 1 cut(s) 572
AcoI YGGCCR 1 cut(s) 210
AcsI RAATTY 2 cut(s) 116, 1038
AcuI CTGAAG 2 cut(s) 708, 983
AfaI GTAC 6 cut(s) 342, 356, 573, 695, 775, 819
AfiI CCNNNNNNNGG 5 cut(s) 666, 748, 749, 952, 953
AgsI TTSAA 5 cut(s) 168, 768, 881, 937, 1033
AhlI ACTAGT 1 cut(s) 529
AjnI CCWGG 2 cut(s) 580, 642
AluBI AGCT 4 cut(s) 302, 386, 602, 811
AluI AGCT 4 cut(s) 302, 386, 602, 811
Alw21I GWGCWC 1 cut(s) 813
Alw26I GTCTC 2 cut(s) 356, 655
AlwI GGATC 1 cut(s) 572
AoxI GGCC 1 cut(s) 210
ApeKI GCWGC 1 cut(s) 329
ApoI RAATTY 2 cut(s) 116, 1038
AseI ATTAAT 1 cut(s) 798
Asp700I GAANNNNTTC 1 cut(s) 984
Asp718I GGTACC 2 cut(s) 354, 773
AspA2I CCTAGG 1 cut(s) 665
AspLEI GCGC 2 cut(s) 459, 705
AspS9I GGNCC 2 cut(s) 125, 473
AsuC2I CCSGG 1 cut(s) 162
AsuHPI GGTGA 1 cut(s) 271
AsuII TTCGAA 1 cut(s) 970
AvaII GGWCC 2 cut(s) 125, 473
AvrII CCTAGG 1 cut(s) 665
BalI TGGCCA 1 cut(s) 212
BanI GGYRCC 2 cut(s) 354, 773
BanII GRGCYC 1 cut(s) 813
Bbv12I GWGCWC 1 cut(s) 813
BbvI GCAGC 1 cut(s) 316
BccI CCATC 1 cut(s) 459
BceAI ACGGC 2 cut(s) 116, 140
BciT130I CCWGG 2 cut(s) 582, 644
BclI TGATCA 1 cut(s) 565
BcnI CCSGG 1 cut(s) 162
BcoDI GTCTC 2 cut(s) 356, 655
BcuI ACTAGT 1 cut(s) 529
BfaI CTAG 2 cut(s) 530, 666
BfmI CTRYAG 1 cut(s) 597
BisI GCNGC 2 cut(s) 231, 330
BlnI CCTAGG 1 cut(s) 665
BlsI GCNGC 2 cut(s) 232, 331
BmcAI AGTACT 1 cut(s) 573
Bme1390I CCNGG 3 cut(s) 162, 582, 644
Bme18I GGWCC 2 cut(s) 125, 473
BmgT120I GGNCC 2 cut(s) 125, 473
BmiI GGNNCC 5 cut(s) 127, 356, 474, 610, 775
BmrFI CCNGG 3 cut(s) 162, 582, 644
BmsI GCATC 5 cut(s) 430, 616, 841, 877, 958
BplI GAGNNNNNCTC 4 cut(s) 272, 304, 370, 402
Bpu14I TTCGAA 1 cut(s) 970
BpuEI CTTGAG 3 cut(s) 370, 380, 565
BpuMI CCSGG 1 cut(s) 162
BsaJI CCNNGG 2 cut(s) 160, 665
Bsc4I CCNNNNNNNGG 5 cut(s) 666, 748, 749, 952, 953
Bse1I ACTGG 2 cut(s) 213, 612
Bse3DI GCAATG 1 cut(s) 290
BseBI CCWGG 2 cut(s) 582, 644
BseDI CCNNGG 2 cut(s) 160, 665
BseGI GGATG 4 cut(s) 316, 631, 653, 892
BseLI CCNNNNNNNGG 5 cut(s) 666, 748, 749, 952, 953
BseMI GCAATG 1 cut(s) 290
BseMII CTCAG 4 cut(s) 383, 792, 798, 966
BseNI ACTGG 2 cut(s) 213, 612
BseXI GCAGC 1 cut(s) 316
BseYI CCCAGC 1 cut(s) 860
Bsh1236I CGCG 1 cut(s) 233
BshFI GGCC 1 cut(s) 212
BshNI GGYRCC 2 cut(s) 354, 773
BsiHKAI GWGCWC 1 cut(s) 813
BsiSI CCGG 1 cut(s) 162
BslFI GGGAC 1 cut(s) 143
BslI CCNNNNNNNGG 5 cut(s) 666, 748, 749, 952, 953
BsmAI GTCTC 2 cut(s) 356, 655
BsmFI GGGAC 1 cut(s) 143
BsmI GAATGC 2 cut(s) 559, 743
BsnI GGCC 1 cut(s) 212
Bsp119I TTCGAA 1 cut(s) 970
Bsp1286I GDGCHC 1 cut(s) 813
Bsp143I GATC 2 cut(s) 565, 577
BspACI CCGC 6 cut(s) 129, 231, 324, 434, 446, 947
BspANI GGCC 1 cut(s) 212
BspCNI CTCAG 4 cut(s) 382, 791, 799, 967
BspFNI CGCG 1 cut(s) 233
BspHI TCATGA 1 cut(s) 729
BspLI GGNNCC 5 cut(s) 127, 356, 474, 610, 775
BspPI GGATC 1 cut(s) 572
BspT104I TTCGAA 1 cut(s) 970
BspT107I GGYRCC 2 cut(s) 354, 773
BsrDI GCAATG 1 cut(s) 290
BsrI ACTGG 2 cut(s) 213, 612
BssECI CCNNGG 2 cut(s) 160, 665
BssMI GATC 2 cut(s) 565, 577
BssT1I CCWWGG 1 cut(s) 665
Bst2UI CCWGG 2 cut(s) 582, 644
Bst4CI ACNGT 2 cut(s) 598, 817
Bst6I CTCTTC 6 cut(s) 11, 45, 864, 876, 1002, 1028
BstAPI GCANNNNNTGC 1 cut(s) 454
BstBI TTCGAA 1 cut(s) 970
BstC8I GCNNGC 1 cut(s) 947
BstDEI CTNAG 5 cut(s) 369, 410, 778, 807, 975
BstF5I GGATG 4 cut(s) 316, 631, 653, 892
BstFNI CGCG 1 cut(s) 233
BstHHI GCGC 2 cut(s) 459, 705
BstKTI GATC 2 cut(s) 568, 580
BstMAI GTCTC 2 cut(s) 356, 655
BstMBI GATC 2 cut(s) 565, 577
BstMWI GCNNNNNNNGC 3 cut(s) 230, 454, 608
BstNI CCWGG 2 cut(s) 582, 644
BstNSI RCATGY 2 cut(s) 427, 945
BstSCI CCNGG 3 cut(s) 160, 580, 642
BstSFI CTRYAG 1 cut(s) 597
BstUI CGCG 1 cut(s) 233
BstV1I GCAGC 1 cut(s) 316
BstXI CCANNNNNNTGG 3 cut(s) 208, 520, 770
BsuRI GGCC 1 cut(s) 212
BtsCI GGATG 4 cut(s) 316, 631, 653, 892
BtsIMutI CAGTG 2 cut(s) 494, 813
Cac8I GCNNGC 1 cut(s) 947
CciI TCATGA 1 cut(s) 729
CfoI GCGC 2 cut(s) 459, 705
Cfr13I GGNCC 2 cut(s) 125, 473
Csp6I GTAC 6 cut(s) 341, 355, 572, 694, 774, 818
CviAII CATG 5 cut(s) 424, 464, 730, 785, 942
CviQI GTAC 6 cut(s) 341, 355, 572, 694, 774, 818
DdeI CTNAG 5 cut(s) 369, 410, 778, 807, 975
DpnI GATC 2 cut(s) 567, 579
DpnII GATC 2 cut(s) 565, 577
EaeI YGGCCR 1 cut(s) 210
Eam1104I CTCTTC 6 cut(s) 11, 45, 864, 876, 1002, 1028
EarI CTCTTC 6 cut(s) 11, 45, 864, 876, 1002, 1028
Ecl136II GAGCTC 1 cut(s) 811
Eco130I CCWWGG 1 cut(s) 665
Eco24I GRGCYC 1 cut(s) 813
Eco47I GGWCC 2 cut(s) 125, 473
Eco53kI GAGCTC 1 cut(s) 811
Eco57I CTGAAG 2 cut(s) 708, 983
EcoICRI GAGCTC 1 cut(s) 811
EcoRII CCWGG 2 cut(s) 580, 642
EcoT14I CCWWGG 1 cut(s) 665
EcoT38I GRGCYC 1 cut(s) 813
ErhI CCWWGG 1 cut(s) 665
FaeI CATG 5 cut(s) 427, 467, 733, 788, 945
FaqI GGGAC 1 cut(s) 143
FatI CATG 5 cut(s) 423, 463, 729, 784, 941
FauI CCCGC 3 cut(s) 136, 441, 954
FbaI TGATCA 1 cut(s) 565
Fnu4HI GCNGC 2 cut(s) 231, 330
FokI GGATG 4 cut(s) 323, 638, 640, 899
FriOI GRGCYC 1 cut(s) 813
Fsp4HI GCNGC 2 cut(s) 231, 330
FspBI CTAG 2 cut(s) 530, 666
FspI TGCGCA 1 cut(s) 458
GlaI GCGC 2 cut(s) 458, 704
GluI GCNGC 2 cut(s) 231, 330
GsaI CCCAGC 1 cut(s) 864
HaeIII GGCC 1 cut(s) 212
HapII CCGG 1 cut(s) 162
HhaI GCGC 2 cut(s) 459, 705
Hin1II CATG 5 cut(s) 427, 467, 733, 788, 945
Hin6I GCGC 2 cut(s) 457, 703
HinP1I GCGC 2 cut(s) 457, 703
HinfI GANTC 7 cut(s) 26, 80, 246, 281, 305, 345, 958
HpaII CCGG 1 cut(s) 162
HphI GGTGA 1 cut(s) 271
Hpy166II GTNNAC 1 cut(s) 854
Hpy188I TCNGA 8 cut(s) 31, 90, 219, 245, 310, 781, 792, 808
Hpy188III TCNNGA 3 cut(s) 349, 482, 730
Hpy8I GTNNAC 1 cut(s) 854
Hpy99I CGWCG 3 cut(s) 125, 238, 254
HpyAV CCTTC 2 cut(s) 150, 479
HpyCH4III ACNGT 2 cut(s) 598, 817
HpyF10VI GCNNNNNNNGC 3 cut(s) 230, 454, 608
HpyF3I CTNAG 5 cut(s) 369, 410, 778, 807, 975
Hsp92II CATG 5 cut(s) 427, 467, 733, 788, 945
HspAI GCGC 2 cut(s) 457, 703
KpnI GGTACC 2 cut(s) 358, 777
Ksp22I TGATCA 1 cut(s) 565
Kzo9I GATC 2 cut(s) 565, 577
LmnI GCTCC 2 cut(s) 448, 608
Lsp1109I GCAGC 1 cut(s) 316
LweI GCATC 5 cut(s) 430, 616, 841, 877, 958
MaeI CTAG 2 cut(s) 530, 666
MaeIII GTNAC 3 cut(s) 426, 490, 592
MalI GATC 2 cut(s) 567, 579
MboI GATC 2 cut(s) 565, 577
MfeI CAATTG 1 cut(s) 768
MhlI GDGCHC 1 cut(s) 813
MlsI TGGCCA 1 cut(s) 212
MluCI AATT 6 cut(s) 66, 116, 768, 799, 966, 1038
MluNI TGGCCA 1 cut(s) 212
MlyI GAGTC 3 cut(s) 74, 290, 967
MmeI TCCRAC 2 cut(s) 596, 846
Mox20I TGGCCA 1 cut(s) 212
MroXI GAANNNNTTC 1 cut(s) 984
MscI TGGCCA 1 cut(s) 212
MseI TTAA 1 cut(s) 798
Msp20I TGGCCA 1 cut(s) 212
MspI CCGG 1 cut(s) 162
MspR9I CCNGG 3 cut(s) 162, 582, 644
MunI CAATTG 1 cut(s) 768
Mva1269I GAATGC 2 cut(s) 559, 743
MvaI CCWGG 2 cut(s) 582, 644
MvnI CGCG 1 cut(s) 233
MwoI GCNNNNNNNGC 3 cut(s) 230, 454, 608
NciI CCSGG 1 cut(s) 162
NdeII GATC 2 cut(s) 565, 577
NlaIII CATG 5 cut(s) 427, 467, 733, 788, 945
NlaIV GGNNCC 5 cut(s) 127, 356, 474, 610, 775
NmuCI GTSAC 1 cut(s) 490
NsbI TGCGCA 1 cut(s) 458
NspI RCATGY 2 cut(s) 427, 945
NspV TTCGAA 1 cut(s) 970
PagI TCATGA 1 cut(s) 729
PcsI WCGNNNNNNNCGW 2 cut(s) 129, 967
PctI GAATGC 2 cut(s) 559, 743
PdmI GAANNNNTTC 1 cut(s) 984
PfeI GAWTC 4 cut(s) 26, 246, 305, 345
PfoI TCCNGGA 1 cut(s) 580
PkrI GCNGC 2 cut(s) 232, 331
PleI GAGTC 3 cut(s) 74, 289, 966
PpsI GAGTC 3 cut(s) 74, 289, 966
PshBI ATTAAT 1 cut(s) 798
Psp124BI GAGCTC 1 cut(s) 813
Psp6I CCWGG 2 cut(s) 580, 642
PspFI CCCAGC 1 cut(s) 860
PspGI CCWGG 2 cut(s) 580, 642
PspN4I GGNNCC 5 cut(s) 127, 356, 474, 610, 775
PspPI GGNCC 2 cut(s) 125, 473
PsrI GAACNNNNNNTAC 2 cut(s) 577, 609
RsaI GTAC 6 cut(s) 342, 356, 573, 695, 775, 819
RsaNI GTAC 6 cut(s) 341, 355, 572, 694, 774, 818
SacI GAGCTC 1 cut(s) 813
SaqAI TTAA 1 cut(s) 798
SatI GCNGC 2 cut(s) 231, 330
Sau3AI GATC 2 cut(s) 565, 577
Sau96I GGNCC 2 cut(s) 125, 473
ScaI AGTACT 1 cut(s) 573
SchI GAGTC 3 cut(s) 74, 290, 967
ScrFI CCNGG 3 cut(s) 162, 582, 644
SduI GDGCHC 1 cut(s) 813
SfaNI GCATC 5 cut(s) 430, 616, 841, 877, 958
SfcI CTRYAG 1 cut(s) 597
SfuI TTCGAA 1 cut(s) 970
SinI GGWCC 2 cut(s) 125, 473
SmlI CTYRAG 3 cut(s) 349, 359, 544
SmoI CTYRAG 3 cut(s) 349, 359, 544
SpeI ACTAGT 1 cut(s) 529
Sse9I AATT 6 cut(s) 66, 116, 768, 799, 966, 1038
SsiI CCGC 6 cut(s) 129, 231, 324, 434, 446, 947
SspI AATATT 1 cut(s) 718
SspMI CTAG 2 cut(s) 530, 666
SstI GAGCTC 1 cut(s) 813
StyD4I CCNGG 3 cut(s) 160, 580, 642
StyI CCWWGG 1 cut(s) 665
TaaI ACNGT 2 cut(s) 598, 817
TaqI TCGA 7 cut(s) 63, 120, 174, 192, 249, 961, 970
TasI AATT 6 cut(s) 66, 116, 768, 799, 966, 1038
TatI WGTACW 1 cut(s) 571
TauI GCSGC 1 cut(s) 233
TfiI GAWTC 4 cut(s) 26, 246, 305, 345
Tru1I TTAA 1 cut(s) 798
Tru9I TTAA 1 cut(s) 798
TscAI CASTG 2 cut(s) 501, 820
TseFI GTSAC 1 cut(s) 490
TseI GCWGC 1 cut(s) 329
Tsp45I GTSAC 1 cut(s) 490
TspDTI ATGAA 4 cut(s) 333, 480, 746, 750
TspGWI ACGGA 2 cut(s) 133, 138
TspRI CASTG 2 cut(s) 501, 820
VpaK11BI GGWCC 2 cut(s) 125, 473
VspI ATTAAT 1 cut(s) 798
XapI RAATTY 2 cut(s) 116, 1038
XceI RCATGY 2 cut(s) 427, 945
XcmI CCANNNNNNNNNTGG 1 cut(s) 619
XmaJI CCTAGG 1 cut(s) 665
XmnI GAANNNNTTC 1 cut(s) 984
XspI CTAG 2 cut(s) 530, 666
ZrmI AGTACT 1 cut(s) 573
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.