Rroxscaffold_2G00107990

C-5 cytosine-specific DNA methylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000338
Physical Location & Seq
Reverse (-)
32020785 .. 32023455
2671 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00107990.1

Sequence Viewer

Length: 1419 bp
ATGGATTCTGATCACTTCTCCTCGGATTATGTGGAAAGCTTTCTAGATGGTTTTTCAGATATGGATAGCTGTGATGATGAGGAAATCATAAGTCATACATCTGAGGAGGAAAAACTAATGTCCTTGATCACAATGGGGTACACAGAAGAGGAGGCTTCCATGGCAGTAGAAAGATGTGGTCATAACTCCTCACTTCTGGAATTGACTGATTTTTTATCTGCTGCTCAATTGGCAAAGGAAGAAGATTCCCTTCTTCCTCTTGAAGAGAAGCCCAGACTAAAACATGTGCACACTGATCCTAAGAAGAAGAGGAAAATTATTGTATCTGATATATCGAAAAGGAAAAGGCAGATGGGGCACATAGACACAGATACTGAGACACTTTGCCTCCCAAATCCAATGATTGGGTTTGGGATTCCAACTGGAGCATGGAAATCTAACAGAATTCTTCCAAAGGCAACCATAGGGCCTCCATATTTTTATTATGAGAATGTCGCCCTTACTCCTAAAGGGGTTTGGGACACTATATCCAAATTCCTATATGATGTTCCCCCTGAGTTTGTTGATTCAAAACATTTCTGTTCTGCTGCTAGAAAAAGGGGTTACGTCCATAATCTTCCTCCTGAGAACAGATTTCCTCTTGTTCCGCTCCCCCCACAAACCATACATGAGGCATTTCCCTTGACAAAAAAATGGTGGCCTTCTTGGGACATAAGAACAAAGCTAAACTGTATAGTAACTTGCTATTCTAGTGCAAAGTTATCAGAGAGGATAATGAAGCTTCTCGAGGGCTGTGATGGCATTCCACCAGAAAGAGTCCAGCGGGCTGTTATACATGAATGTCGTAAGTGGAATCTATTGTGGGTTGGAAGAAATAGGGTTGCCCCACTTGAGCCTGATGAAGTGGAAATGCTCATGGGGTTTCCAAAGGATCACACAAGGGGAATGAGCCGCACTGATAGATACAAATCGCTTGGCAATGCATTTCAGATTCACACTGTGGCATACCACTTCTCAGTCTTGCGAGACAAGTTTCCAAATGGTATAAATGTCCTCTCTCTATTCTCCGGGATAGGTGGAGCAGAAGTAGCCCTCCATCGTCTTGGAATCCATATGAAGAATGTGGTGTCCGTAGAGATATCAGAAGTGAACAGAAACGTTGTGAGGTGTTGGTGGGAGCAAACAAACCAGACGGGAAATTTGATTCACCTTGCTGATGTAAAGGAGCTAGATGCTAACAGATTGGAACAGTTGATGTTTTCATTCGGTGGTTTTGATCTTGTAGTGGGTGGGAGCCCCTGCAATAATCTAACAGGCAGCAATAGACATCATCGAGATGGACTCGAGGGCAAAGAATCTTCACTTTTCTATCACTACTTTCGAATTCTGGACTTGGTCAAGTCTATTATGGCAGGATAA
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
DNA_methylase

Protein Analysis

472

Amino Acids

53.71

Weight (kDa)

6.27

Isoelectric Point (pI)

42.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_methylase PF00145 350 - 464 2.5e-09 C-5 cytosine-specific DNA methylase
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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Orthologous Genes (Group: OG0000338)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G14620
fragaria_vesca FvH4_6g30300 FvH4_6g30450 FvH4_6g50980 FvH4_6g50980
malus_domestica MD09G1029900.v1.1 MD17G1031900.v1.1
prunus_persica Prupe.3G287400_v2.0.a1 Prupe.3G287400_v2.0.a1 Prupe.3G287400_v2.0.a1 Prupe.3G287400_v2.0.a1 Prupe.3G287400_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1 Prupe.8G038800_v2.0.a1
pyrus_communis pycom111g02390 pycom17g02950
rosa_chinensis RchiOBHm_Chr1g0321581 RchiOBHm_Chr1g0321601 RchiOBHm_Chr1g0322481 RchiOBHm_Chr1g0322501 RchiOBHm_Chr1g0322511 RchiOBHm_Chr1g0322631 RchiOBHm_Chr1g0322691 RchiOBHm_Chr1g0322751 RchiOBHm_Chr1g0323101 RchiOBHm_Chr1g0323111 RchiOBHm_Chr1g0328981 RchiOBHm_Chr1g0328991 RchiOBHm_Chr2g0136781 RchiOBHm_Chr2g0136791 RchiOBHm_Chr2g0136801 RchiOBHm_Chr2g0172381
rosa_laevigata RLG00000019575 RLG00000019577 RLG00000030366 RLG00000030370 RLG00000030377 RLG00000030379
rosa_multiflora Rmu_co8075278.1_g000001 Rmu_co8206584.1_g000001 Rmu_sc0000467.1_g000002 Rmu_sc0000467.1_g000007 Rmu_sc0001299.1_g000016 Rmu_sc0001932.1_g000013 Rmu_sc0002132.1_g000049 Rmu_sc0005093.1_g000002 Rmu_sc0005949.1_g000027 Rmu_sc0007485.1_g000011 Rmu_sc0007799.1_g000006 Rmu_sc0023751.1_g000001 Rmu_sc0039575.1_g000001
rosa_roxburghii Rroxscaffold_2G00107990 Rroxscaffold_2G00129580 Rroxscaffold_4G00326990
rosa_rugosa Rorug01G0034500 Rorug01G0035900 Rorug01G0036600 Rorug02G0268000 Rorug02G0333200 Rorug02G0333200 Rorug02G0333300 Rorug02G0333300 Rorug02G0333400 Rorug02G0333500 Rorug02G0333600 Rorug02G0333700 Rorug02G0333700 Rorug02G0333700 Rorug02G0558900 Rorug02G0559000 Rorug06G0043800 Rorug06G0044300
rosa_samantha Rh1AG051000 Rh1AG052400 Rh1AG052600 Rh1AG053200 Rh1AG053300 Rh1AG054000 Rh1BG046600 Rh1BG109100 Rh1CG048300 Rh1CG053000 Rh1CG053100 Rh1DG057000 Rh2AG384300 Rh2AG634100 Rh2BG390900 Rh2BG391000 Rh2BG647800 Rh2BG648200 Rh2CG370600 Rh2CG370800 Rh2CG614800 Rh2DG407600 Rh2DG407700 Rh2DG662800 Rh7BG379000
rosa_wichuraiana Rw1G004090 Rw1G004430 Rw2G031410 Rw2G031420 Rw2G052520

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 404
AccBSI CCGCTC 1 cut(s) 649
AciI CCGC 3 cut(s) 647, 823, 952
AclI AACGTT 1 cut(s) 1158
AclWI GGATC 2 cut(s) 290, 939
AcsI RAATTY 4 cut(s) 444, 533, 1198, 1383
AdeI CACNNNGTG 1 cut(s) 1000
AfaI GTAC 1 cut(s) 140
AfiI CCNNNNNNNGG 1 cut(s) 404
AflIII ACRYGT 1 cut(s) 283
AgsI TTSAA 2 cut(s) 263, 570
AluBI AGCT 5 cut(s) 39, 69, 724, 781, 1228
AluI AGCT 5 cut(s) 39, 69, 724, 781, 1228
Alw21I GWGCWC 1 cut(s) 291
Alw26I GTCTC 2 cut(s) 371, 1020
Alw44I GTGCAC 1 cut(s) 287
AlwI GGATC 2 cut(s) 290, 939
AlwNI CAGNNNCTG 1 cut(s) 374
Ama87I CYCGRG 2 cut(s) 785, 1343
AoxI GGCC 2 cut(s) 467, 698
ApaLI GTGCAC 1 cut(s) 287
ApeKI GCWGC 3 cut(s) 221, 587, 1317
ApoI RAATTY 4 cut(s) 444, 533, 1198, 1383
ArsI GACNNNNNNTTYG 2 cut(s) 1183, 1215
Asp700I GAANNNNTTC 1 cut(s) 39
AspS9I GGNCC 1 cut(s) 467
AsuC2I CCSGG 1 cut(s) 1069
AsuHPI GGTGA 1 cut(s) 1199
AsuII TTCGAA 1 cut(s) 1381
AvaI CYCGRG 2 cut(s) 785, 1343
BaeGI GKGCMC 2 cut(s) 291, 360
BanII GRGCYC 1 cut(s) 1298
Bbv12I GWGCWC 1 cut(s) 291
BbvI GCAGC 3 cut(s) 208, 574, 1329
BccI CCATC 5 cut(s) 41, 346, 791, 1104, 1331
BclI TGATCA 2 cut(s) 10, 126
BcnI CCSGG 1 cut(s) 1069
BcoDI GTCTC 2 cut(s) 371, 1020
BfaI CTAG 4 cut(s) 44, 591, 750, 1229
BisI GCNGC 4 cut(s) 222, 588, 952, 1318
BlsI GCNGC 4 cut(s) 223, 589, 953, 1319
Bme1390I CCNGG 1 cut(s) 1069
BmeT110I CYCGRG 2 cut(s) 785, 1343
BmgT120I GGNCC 1 cut(s) 467
BmiI GGNNCC 1 cut(s) 1295
BmrFI CCNGG 1 cut(s) 1069
BmsI GCATC 1 cut(s) 1222
BplI GAGNNNNNCTC 2 cut(s) 1326, 1358
BpmI CTGGAG 1 cut(s) 444
Bpu14I TTCGAA 1 cut(s) 1381
BpuEI CTTGAG 1 cut(s) 911
BpuMI CCSGG 1 cut(s) 1069
BsaBI GATNNNNATC 2 cut(s) 9, 967
BsaJI CCNNGG 2 cut(s) 21, 159
BsaXI ACNNNNNCTCC 4 cut(s) 372, 402, 1071, 1101
Bsc4I CCNNNNNNNGG 1 cut(s) 404
Bse1I ACTGG 1 cut(s) 427
Bse3DI GCAATG 1 cut(s) 985
Bse8I GATNNNNATC 2 cut(s) 9, 967
BseDI CCNNGG 2 cut(s) 21, 159
BseJI GATNNNNATC 2 cut(s) 9, 967
BseLI CCNNNNNNNGG 1 cut(s) 404
BseMI GCAATG 1 cut(s) 985
BseMII CTCAG 5 cut(s) 93, 366, 546, 615, 1029
BseNI ACTGG 1 cut(s) 427
BseRI GAGGAG 4 cut(s) 10, 119, 164, 178
BseSI GKGCMC 2 cut(s) 291, 360
BseXI GCAGC 3 cut(s) 208, 574, 1329
BshFI GGCC 2 cut(s) 469, 700
BsiHKAI GWGCWC 1 cut(s) 291
BsiHKCI CYCGRG 2 cut(s) 785, 1343
BsiSI CCGG 1 cut(s) 1068
BslFI GGGAC 2 cut(s) 533, 722
BslI CCNNNNNNNGG 1 cut(s) 404
BsmAI GTCTC 2 cut(s) 371, 1020
BsmFI GGGAC 2 cut(s) 533, 722
BsmI GAATGC 1 cut(s) 801
BsnI GGCC 2 cut(s) 469, 700
BsoBI CYCGRG 2 cut(s) 785, 1343
Bsp119I TTCGAA 1 cut(s) 1381
Bsp1286I GDGCHC 3 cut(s) 291, 360, 1298
Bsp143I GATC 5 cut(s) 10, 126, 295, 931, 1276
Bsp19I CCATGG 1 cut(s) 159
BspACI CCGC 3 cut(s) 647, 823, 952
BspANI GGCC 2 cut(s) 469, 700
BspCNI CTCAG 5 cut(s) 94, 367, 547, 616, 1028
BspLI GGNNCC 1 cut(s) 1295
BspPI GGATC 2 cut(s) 290, 939
BspT104I TTCGAA 1 cut(s) 1381
BsrBI CCGCTC 1 cut(s) 649
BsrDI GCAATG 1 cut(s) 985
BsrI ACTGG 1 cut(s) 427
BssECI CCNNGG 2 cut(s) 21, 159
BssMI GATC 5 cut(s) 10, 126, 295, 931, 1276
BssT1I CCWWGG 1 cut(s) 159
Bst4CI ACNGT 3 cut(s) 731, 1000, 1251
Bst6I CTCTTC 3 cut(s) 141, 258, 302
BstBI TTCGAA 1 cut(s) 1381
BstC8I GCNNGC 1 cut(s) 825
BstDEI CTNAG 6 cut(s) 102, 300, 375, 555, 624, 1015
BstDSI CCRYGG 1 cut(s) 159
BstKTI GATC 5 cut(s) 13, 129, 298, 934, 1279
BstMAI GTCTC 2 cut(s) 371, 1020
BstMBI GATC 5 cut(s) 10, 126, 295, 931, 1276
BstMWI GCNNNNNNNGC 5 cut(s) 161, 230, 355, 798, 1088
BstNSI RCATGY 1 cut(s) 287
BstSCI CCNGG 1 cut(s) 1067
BstSLI GKGCMC 2 cut(s) 291, 360
BstV1I GCAGC 3 cut(s) 208, 574, 1329
BstXI CCANNNNNNTGG 1 cut(s) 1103
BsuRI GGCC 2 cut(s) 469, 700
BtgI CCRYGG 1 cut(s) 159
BtsIMutI CAGTG 3 cut(s) 291, 954, 996
Cac8I GCNNGC 1 cut(s) 825
CaiI CAGNNNCTG 1 cut(s) 374
Cfr13I GGNCC 1 cut(s) 467
Csp6I GTAC 1 cut(s) 139
CviAII CATG 6 cut(s) 160, 284, 429, 668, 836, 916
CviQI GTAC 1 cut(s) 139
DdeI CTNAG 6 cut(s) 102, 300, 375, 555, 624, 1015
DpnI GATC 5 cut(s) 12, 128, 297, 933, 1278
DpnII GATC 5 cut(s) 10, 126, 295, 931, 1276
DraIII CACNNNGTG 1 cut(s) 1000
Eam1104I CTCTTC 3 cut(s) 141, 258, 302
EarI CTCTTC 3 cut(s) 141, 258, 302
Eco130I CCWWGG 1 cut(s) 159
Eco24I GRGCYC 1 cut(s) 1298
Eco32I GATATC 1 cut(s) 1140
Eco88I CYCGRG 2 cut(s) 785, 1343
EcoO109I RGGNCCY 1 cut(s) 467
EcoRI GAATTC 2 cut(s) 444, 1383
EcoRV GATATC 1 cut(s) 1140
EcoT14I CCWWGG 1 cut(s) 159
EcoT22I ATGCAT 1 cut(s) 985
EcoT38I GRGCYC 1 cut(s) 1298
ErhI CCWWGG 1 cut(s) 159
FaeI CATG 6 cut(s) 163, 287, 432, 671, 839, 919
FalI AAGNNNNNCTT 2 cut(s) 234, 266
FaqI GGGAC 2 cut(s) 533, 722
FatI CATG 6 cut(s) 159, 283, 428, 667, 835, 915
FauI CCCGC 1 cut(s) 816
FauNDI CATATG 1 cut(s) 1113
FbaI TGATCA 2 cut(s) 10, 126
Fnu4HI GCNGC 4 cut(s) 222, 588, 952, 1318
FriOI GRGCYC 1 cut(s) 1298
Fsp4HI GCNGC 4 cut(s) 222, 588, 952, 1318
FspBI CTAG 4 cut(s) 44, 591, 750, 1229
GluI GCNGC 4 cut(s) 222, 588, 952, 1318
GsuI CTGGAG 1 cut(s) 444
HaeIII GGCC 2 cut(s) 469, 700
HapII CCGG 1 cut(s) 1068
Hin1II CATG 6 cut(s) 163, 287, 432, 671, 839, 919
HindIII AAGCTT 2 cut(s) 37, 779
HpaII CCGG 1 cut(s) 1068
HphI GGTGA 1 cut(s) 1199
Hpy166II GTNNAC 3 cut(s) 141, 289, 1150
Hpy188I TCNGA 8 cut(s) 10, 25, 58, 103, 328, 766, 990, 1144
Hpy188III TCNNGA 7 cut(s) 44, 197, 260, 623, 785, 1334, 1388
Hpy8I GTNNAC 3 cut(s) 141, 289, 1150
HpyAV CCTTC 2 cut(s) 260, 711
HpyCH4III ACNGT 3 cut(s) 731, 1000, 1251
HpyCH4IV ACGT 2 cut(s) 606, 1158
HpyCH4V TGCA 4 cut(s) 289, 755, 983, 1302
HpyF10VI GCNNNNNNNGC 5 cut(s) 161, 230, 355, 798, 1088
HpyF3I CTNAG 6 cut(s) 102, 300, 375, 555, 624, 1015
HpySE526I ACGT 2 cut(s) 606, 1158
Hsp92II CATG 6 cut(s) 163, 287, 432, 671, 839, 919
Ksp22I TGATCA 2 cut(s) 10, 126
Kzo9I GATC 5 cut(s) 10, 126, 295, 931, 1276
LmnI GCTCC 6 cut(s) 425, 654, 1079, 1177, 1225, 1293
Lsp1109I GCAGC 3 cut(s) 208, 574, 1329
LweI GCATC 1 cut(s) 1222
MaeI CTAG 4 cut(s) 44, 591, 750, 1229
MaeII ACGT 2 cut(s) 606, 1158
MaeIII GTNAC 2 cut(s) 602, 736
MalI GATC 5 cut(s) 12, 128, 297, 933, 1278
MbiI CCGCTC 1 cut(s) 649
MboI GATC 5 cut(s) 10, 126, 295, 931, 1276
MfeI CAATTG 1 cut(s) 227
MhlI GDGCHC 3 cut(s) 291, 360, 1298
MluCI AATT 7 cut(s) 200, 227, 315, 444, 533, 1198, 1383
MlyI GAGTC 2 cut(s) 825, 1335
MmeI TCCRAC 2 cut(s) 443, 847
Mph1103I ATGCAT 1 cut(s) 985
MroXI GAANNNNTTC 1 cut(s) 39
MslI CAYNNNNRTG 1 cut(s) 1335
MspA1I CMGCKG 1 cut(s) 823
MspI CCGG 1 cut(s) 1068
MspR9I CCNGG 1 cut(s) 1069
MunI CAATTG 1 cut(s) 227
Mva1269I GAATGC 1 cut(s) 801
MwoI GCNNNNNNNGC 5 cut(s) 161, 230, 355, 798, 1088
NciI CCSGG 1 cut(s) 1069
NcoI CCATGG 1 cut(s) 159
NdeI CATATG 1 cut(s) 1113
NdeII GATC 5 cut(s) 10, 126, 295, 931, 1276
NlaIII CATG 6 cut(s) 163, 287, 432, 671, 839, 919
NlaIV GGNNCC 1 cut(s) 1295
NsiI ATGCAT 1 cut(s) 985
NspI RCATGY 1 cut(s) 287
NspV TTCGAA 1 cut(s) 1381
PaeR7I CTCGAG 2 cut(s) 785, 1343
PciI ACATGT 1 cut(s) 283
PctI GAATGC 1 cut(s) 801
PdmI GAANNNNTTC 1 cut(s) 39
PfeI GAWTC 9 cut(s) 5, 245, 415, 566, 853, 991, 1107, 1204, 1355
PflFI GACNNNGTC 1 cut(s) 1394
PflMI CCANNNNNTGG 1 cut(s) 404
PfoI TCCNGGA 1 cut(s) 1067
PkrI GCNGC 4 cut(s) 223, 589, 953, 1319
PleI GAGTC 2 cut(s) 824, 1335
PpsI GAGTC 2 cut(s) 824, 1335
PscI ACATGT 1 cut(s) 283
Psp1406I AACGTT 1 cut(s) 1158
PspN4I GGNNCC 1 cut(s) 1295
PspPI GGNCC 1 cut(s) 467
PspXI VCTCGAGB 1 cut(s) 1343
PstNI CAGNNNCTG 1 cut(s) 374
PsyI GACNNNGTC 1 cut(s) 1394
RsaI GTAC 1 cut(s) 140
RsaNI GTAC 1 cut(s) 139
RseI CAYNNNNRTG 1 cut(s) 1335
SatI GCNGC 4 cut(s) 222, 588, 952, 1318
Sau3AI GATC 5 cut(s) 10, 126, 295, 931, 1276
Sau96I GGNCC 1 cut(s) 467
SchI GAGTC 2 cut(s) 825, 1335
ScrFI CCNGG 1 cut(s) 1069
SduI GDGCHC 3 cut(s) 291, 360, 1298
SfaNI GCATC 1 cut(s) 1222
Sfr274I CTCGAG 2 cut(s) 785, 1343
SfuI TTCGAA 1 cut(s) 1381
SlaI CTCGAG 2 cut(s) 785, 1343
SmiMI CAYNNNNRTG 1 cut(s) 1335
SmlI CTYRAG 3 cut(s) 785, 890, 1343
SmoI CTYRAG 3 cut(s) 785, 890, 1343
Sse9I AATT 7 cut(s) 200, 227, 315, 444, 533, 1198, 1383
SsiI CCGC 3 cut(s) 647, 823, 952
SspMI CTAG 4 cut(s) 44, 591, 750, 1229
StyD4I CCNGG 1 cut(s) 1067
StyI CCWWGG 1 cut(s) 159
TaaI ACNGT 3 cut(s) 731, 1000, 1251
TaiI ACGT 2 cut(s) 609, 1161
TaqI TCGA 5 cut(s) 335, 786, 1333, 1344, 1381
TasI AATT 7 cut(s) 200, 227, 315, 444, 533, 1198, 1383
TauI GCSGC 1 cut(s) 954
TfiI GAWTC 9 cut(s) 5, 245, 415, 566, 853, 991, 1107, 1204, 1355
TscAI CASTG 3 cut(s) 298, 961, 1003
TseI GCWGC 3 cut(s) 221, 587, 1317
TspDTI ATGAA 5 cut(s) 791, 852, 915, 1130, 1251
TspGWI ACGGA 1 cut(s) 1120
TspRI CASTG 3 cut(s) 298, 961, 1003
Tth111I GACNNNGTC 1 cut(s) 1394
Van91I CCANNNNNTGG 1 cut(s) 404
VneI GTGCAC 1 cut(s) 287
XapI RAATTY 4 cut(s) 444, 533, 1198, 1383
XbaI TCTAGA 1 cut(s) 43
XceI RCATGY 1 cut(s) 287
XcmI CCANNNNNNNNNTGG 1 cut(s) 426
XhoI CTCGAG 2 cut(s) 785, 1343
XmnI GAANNNNTTC 1 cut(s) 39
XspI CTAG 4 cut(s) 44, 591, 750, 1229
Zsp2I ATGCAT 1 cut(s) 985
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.