Rroxscaffold_1G00016390

methyl-CpG-binding domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014187
Physical Location & Seq
Reverse (-)
20402194 .. 20405726
3533 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00016390.1

Sequence Viewer

Length: 702 bp
ATGTCAGCCCCCGAAGCTTCTGGTAAAGATCTGAACCCGAACCCGAATCCGAATCCGACTCCGAGTCCACCTCATCAACACCACCTGAATCCTCCCCCTGACGGAACCTTCGACGGCGCCGATCCCCTCCTCCAATTGGGGGCCTTCATCGACCCCACCTCAGATATGGAAGAAACCGGGAAGGCCCAACCGAACGGTGTGGACTCAGTGACGCCGGGCACGAGTAATGTCACTGCAGACTGGTCGGCGGGCCGGGCTAAGGCGAAGGGATGGGATCCTCAGGCTATGGATTGGTTGCCGGCCGGTTGGAGAGTGGAGTATAAAGTGCGGAGCTCCGGTGTTACAGCTGGAAGTACAGATAGGTATTACCACGATCCAGTCTCAGGTCATCGATTTCGGTCAAAGAAAGAAGTCCTTCACTTTCTGGAAACAGGAACGCTCAAGAAGAACGCTAGTTCTGACAAAACGTCCGTGGAAGGTTCTGCGAGCAAAAAGCAAAGGAAGTCTAGTACAAAGCCCAGACCTGCTGTGACCTTTGATTTTTTTGATGTGCCTGCGAAGGTGGAATGGGTTCTCACAGACTCCTCTCAGTGGACCTGGACACCCTTTATCGGTGACCAAAAGGTGCCCGAGTCCACTGCCAAAGAATGGGCTACTGCATTCACAGTTTTCACATCCAGCAATAGTGGCCACACTCAATGA

Protein Analysis

233

Amino Acids

25.35

Weight (kDa)

6.38

Isoelectric Point (pI)

31.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MBD PF01429 97 - 147 1e-10 Methyl-CpG binding domain
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: OG0014187)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G46580 AT5G59380
fragaria_vesca FvH4_3g36180
malus_domestica MD03G1092700.v1.1 MD11G1107500.v1.1
prunus_persica Prupe.6G076700_v2.0.a1
pyrus_communis pycom03g07410
rosa_chinensis RchiOBHm_Chr5g0064931
rosa_laevigata RLG00000035743
rosa_multiflora Rmu_sc0003352.1_g000016
rosa_roxburghii Rroxscaffold_1G00016390
rosa_rugosa Rorug05G0366700
rosa_samantha Rh5AG425200 Rh5BG440000 Rh5CG462700 Rh5DG453200
rosa_wichuraiana Rw5G039950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 532
AccB1I GGYRCC 2 cut(s) 116, 625
AccB7I CCANNNNNTGG 1 cut(s) 648
AciI CCGC 2 cut(s) 248, 328
AclWI GGATC 4 cut(s) 116, 269, 282, 368
AcoI YGGCCR 2 cut(s) 300, 688
AcyI GRCGYC 2 cut(s) 117, 212
AfaI GTAC 2 cut(s) 355, 511
AfiI CCNNNNNNNGG 8 cut(s) 101, 136, 139, 259, 383, 591, 611, 648
AhdI GACNNNNNGTC 2 cut(s) 63, 466
AjnI CCWGG 1 cut(s) 596
AluBI AGCT 3 cut(s) 17, 333, 347
AluI AGCT 3 cut(s) 17, 333, 347
Alw21I GWGCWC 1 cut(s) 335
Alw26I GTCTC 1 cut(s) 385
AlwI GGATC 4 cut(s) 116, 269, 282, 368
Ama87I CYCGRG 1 cut(s) 629
AoxI GGCC 5 cut(s) 141, 183, 250, 300, 688
ArsI GACNNNNNNTTYG 2 cut(s) 92, 124
Asp700I GAANNNNTTC 2 cut(s) 414, 570
AspLEI GCGC 1 cut(s) 119
AspS9I GGNCC 4 cut(s) 141, 184, 250, 594
AsuC2I CCSGG 3 cut(s) 178, 216, 254
AsuHPI GGTGA 1 cut(s) 626
AvaI CYCGRG 1 cut(s) 629
AvaII GGWCC 1 cut(s) 594
AxyI CCTNAGG 1 cut(s) 279
BaeGI GKGCMC 2 cut(s) 221, 630
BalI TGGCCA 1 cut(s) 690
BamHI GGATCC 1 cut(s) 274
BanI GGYRCC 2 cut(s) 116, 625
BanII GRGCYC 1 cut(s) 335
BauI CACGAG 1 cut(s) 220
Bbv12I GWGCWC 1 cut(s) 335
BccI CCATC 1 cut(s) 264
BceAI ACGGC 1 cut(s) 130
BcgI CGANNNNNNTGC 4 cut(s) 225, 259, 620, 654
BciT130I CCWGG 1 cut(s) 598
BcnI CCSGG 3 cut(s) 178, 216, 254
BcoDI GTCTC 1 cut(s) 385
BfaI CTAG 2 cut(s) 453, 507
BfmI CTRYAG 1 cut(s) 234
BfoI RGCGCY 1 cut(s) 120
BfuAI ACCTGC 1 cut(s) 532
BglII AGATCT 1 cut(s) 28
Bme1390I CCNGG 4 cut(s) 178, 216, 254, 598
Bme18I GGWCC 1 cut(s) 594
BmeRI GACNNNNNGTC 2 cut(s) 63, 466
BmeT110I CYCGRG 1 cut(s) 629
BmgT120I GGNCC 4 cut(s) 141, 184, 250, 594
BmiI GGNNCC 5 cut(s) 106, 118, 142, 276, 627
BmrFI CCNGG 4 cut(s) 178, 216, 254, 598
BplI GAGNNNNNCTC 2 cut(s) 55, 87
Bpu10I CCTNAGC 1 cut(s) 258
BpuEI CTTGAG 1 cut(s) 425
BpuMI CCSGG 3 cut(s) 178, 216, 254
Bsa29I ATCGAT 1 cut(s) 391
BsaHI GRCGYC 2 cut(s) 117, 212
BsaJI CCNNGG 1 cut(s) 471
BsaWI WCCGGW 1 cut(s) 335
BsaXI ACNNNNNCTCC 2 cut(s) 322, 352
Bsc4I CCNNNNNNNGG 8 cut(s) 101, 136, 139, 259, 383, 591, 611, 648
Bse118I RCCGGY 2 cut(s) 298, 302
Bse1I ACTGG 2 cut(s) 245, 377
Bse21I CCTNAGG 1 cut(s) 279
BseBI CCWGG 1 cut(s) 598
BseCI ATCGAT 1 cut(s) 391
BseDI CCNNGG 1 cut(s) 471
BseGI GGATG 2 cut(s) 275, 674
BseLI CCNNNNNNNGG 8 cut(s) 101, 136, 139, 259, 383, 591, 611, 648
BseMII CTCAG 5 cut(s) 174, 219, 293, 396, 602
BseNI ACTGG 2 cut(s) 245, 377
BseRI GAGGAG 2 cut(s) 119, 574
BseSI GKGCMC 2 cut(s) 221, 630
BseX3I CGGCCG 1 cut(s) 300
Bsh1285I CGRYCG 1 cut(s) 303
BshFI GGCC 5 cut(s) 143, 185, 252, 302, 690
BshNI GGYRCC 2 cut(s) 116, 625
BshVI ATCGAT 1 cut(s) 391
BsiEI CGRYCG 1 cut(s) 303
BsiHKAI GWGCWC 1 cut(s) 335
BsiHKCI CYCGRG 1 cut(s) 629
BsiSI CCGG 6 cut(s) 177, 215, 253, 299, 303, 336
BslI CCNNNNNNNGG 8 cut(s) 101, 136, 139, 259, 383, 591, 611, 648
BsmAI GTCTC 1 cut(s) 385
BsmI GAATGC 1 cut(s) 659
BsnI GGCC 5 cut(s) 143, 185, 252, 302, 690
BsoBI CYCGRG 1 cut(s) 629
Bsp1286I GDGCHC 3 cut(s) 221, 335, 630
Bsp143I GATC 4 cut(s) 28, 121, 274, 373
BspACI CCGC 2 cut(s) 248, 328
BspANI GGCC 5 cut(s) 143, 185, 252, 302, 690
BspCNI CTCAG 5 cut(s) 173, 218, 292, 395, 601
BspDI ATCGAT 1 cut(s) 391
BspLI GGNNCC 5 cut(s) 106, 118, 142, 276, 627
BspMAI CTGCAG 1 cut(s) 238
BspMI ACCTGC 1 cut(s) 532
BspPI GGATC 4 cut(s) 116, 269, 282, 368
BspT107I GGYRCC 2 cut(s) 116, 625
BsrFI RCCGGY 2 cut(s) 298, 302
BsrI ACTGG 2 cut(s) 245, 377
BssAI RCCGGY 2 cut(s) 298, 302
BssECI CCNNGG 1 cut(s) 471
BssMI GATC 4 cut(s) 28, 121, 274, 373
BssNI GRCGYC 2 cut(s) 117, 212
BssSI CACGAG 1 cut(s) 220
Bst2BI CACGAG 1 cut(s) 220
Bst2UI CCWGG 1 cut(s) 598
Bst4CI ACNGT 2 cut(s) 197, 667
BstACI GRCGYC 2 cut(s) 117, 212
BstC8I GCNNGC 4 cut(s) 250, 300, 487, 555
BstDEI CTNAG 6 cut(s) 160, 205, 258, 279, 382, 588
BstDSI CCRYGG 1 cut(s) 471
BstEII GGTNACC 1 cut(s) 614
BstF5I GGATG 2 cut(s) 275, 674
BstH2I RGCGCY 1 cut(s) 120
BstHHI GCGC 1 cut(s) 119
BstKTI GATC 4 cut(s) 31, 124, 277, 376
BstMAI GTCTC 1 cut(s) 385
BstMBI GATC 4 cut(s) 28, 121, 274, 373
BstMCI CGRYCG 1 cut(s) 303
BstMWI GCNNNNNNNGC 3 cut(s) 14, 254, 687
BstNI CCWGG 1 cut(s) 598
BstPI GGTNACC 1 cut(s) 614
BstSCI CCNGG 4 cut(s) 176, 214, 252, 596
BstSFI CTRYAG 1 cut(s) 234
BstSLI GKGCMC 2 cut(s) 221, 630
BstX2I RGATCY 2 cut(s) 28, 274
BstYI RGATCY 2 cut(s) 28, 274
BstZI CGGCCG 1 cut(s) 300
Bsu15I ATCGAT 1 cut(s) 391
Bsu36I CCTNAGG 1 cut(s) 279
BsuRI GGCC 5 cut(s) 143, 185, 252, 302, 690
BsuTUI ATCGAT 1 cut(s) 391
BtgI CCRYGG 1 cut(s) 471
BtsCI GGATG 2 cut(s) 275, 674
BtsI GCAGTG 2 cut(s) 231, 636
BtsIMutI CAGTG 4 cut(s) 213, 231, 596, 636
BveI ACCTGC 1 cut(s) 532
Cac8I GCNNGC 4 cut(s) 250, 300, 487, 555
CfoI GCGC 1 cut(s) 119
Cfr10I RCCGGY 2 cut(s) 298, 302
Cfr13I GGNCC 4 cut(s) 141, 184, 250, 594
ClaI ATCGAT 1 cut(s) 391
CseI GACGC 1 cut(s) 220
Csp6I GTAC 2 cut(s) 354, 510
CviQI GTAC 2 cut(s) 354, 510
DdeI CTNAG 6 cut(s) 160, 205, 258, 279, 382, 588
DinI GGCGCC 1 cut(s) 118
DpnI GATC 4 cut(s) 30, 123, 276, 375
DpnII GATC 4 cut(s) 28, 121, 274, 373
DriI GACNNNNNGTC 2 cut(s) 63, 466
EaeI YGGCCR 2 cut(s) 300, 688
EagI CGGCCG 1 cut(s) 300
Eam1105I GACNNNNNGTC 2 cut(s) 63, 466
Ecl136II GAGCTC 1 cut(s) 333
EclXI CGGCCG 1 cut(s) 300
Eco24I GRGCYC 1 cut(s) 335
Eco47I GGWCC 1 cut(s) 594
Eco52I CGGCCG 1 cut(s) 300
Eco53kI GAGCTC 1 cut(s) 333
Eco81I CCTNAGG 1 cut(s) 279
Eco88I CYCGRG 1 cut(s) 629
Eco91I GGTNACC 1 cut(s) 614
EcoICRI GAGCTC 1 cut(s) 333
EcoO109I RGGNCCY 1 cut(s) 141
EcoO65I GGTNACC 1 cut(s) 614
EcoRII CCWGG 1 cut(s) 596
EcoT38I GRGCYC 1 cut(s) 335
EgeI GGCGCC 1 cut(s) 118
EheI GGCGCC 1 cut(s) 118
FaiI YATR 3 cut(s) 167, 287, 321
FalI AAGNNNNNCTT 2 cut(s) 399, 431
FauI CCCGC 1 cut(s) 241
FokI GGATG 2 cut(s) 282, 661
FriOI GRGCYC 1 cut(s) 335
FspBI CTAG 2 cut(s) 453, 507
GlaI GCGC 1 cut(s) 118
HaeII RGCGCY 1 cut(s) 120
HaeIII GGCC 5 cut(s) 143, 185, 252, 302, 690
HapII CCGG 6 cut(s) 177, 215, 253, 299, 303, 336
HgaI GACGC 1 cut(s) 220
HhaI GCGC 1 cut(s) 119
Hin1I GRCGYC 2 cut(s) 117, 212
Hin6I GCGC 1 cut(s) 117
HinP1I GCGC 1 cut(s) 117
HindIII AAGCTT 1 cut(s) 15
HinfI GANTC 8 cut(s) 46, 52, 58, 64, 88, 203, 581, 632
HpaII CCGG 6 cut(s) 177, 215, 253, 299, 303, 336
HphI GGTGA 1 cut(s) 626
Hpy166II GTNNAC 4 cut(s) 68, 202, 594, 636
Hpy188I TCNGA 6 cut(s) 33, 51, 57, 63, 163, 460
Hpy188III TCNNGA 2 cut(s) 425, 442
Hpy8I GTNNAC 4 cut(s) 68, 202, 594, 636
Hpy99I CGWCG 1 cut(s) 116
HpyAV CCTTC 7 cut(s) 118, 154, 175, 259, 425, 470, 553
HpyCH4III ACNGT 2 cut(s) 197, 667
HpyCH4IV ACGT 1 cut(s) 467
HpyCH4V TGCA 2 cut(s) 236, 659
HpyF10VI GCNNNNNNNGC 3 cut(s) 14, 254, 687
HpyF3I CTNAG 6 cut(s) 160, 205, 258, 279, 382, 588
HpySE526I ACGT 1 cut(s) 467
Hsp92I GRCGYC 2 cut(s) 117, 212
HspAI GCGC 1 cut(s) 117
KasI GGCGCC 1 cut(s) 116
KroI GCCGGC 1 cut(s) 298
KroNI GCCGGC 1 cut(s) 300
Kzo9I GATC 4 cut(s) 28, 121, 274, 373
LmnI GCTCC 2 cut(s) 330, 338
MaeI CTAG 2 cut(s) 453, 507
MaeII ACGT 1 cut(s) 467
MaeIII GTNAC 5 cut(s) 208, 229, 340, 529, 614
MalI GATC 4 cut(s) 30, 123, 276, 375
MboI GATC 4 cut(s) 28, 121, 274, 373
MboII GAAGA 2 cut(s) 182, 457
MfeI CAATTG 1 cut(s) 134
MflI RGATCY 2 cut(s) 28, 274
MhlI GDGCHC 3 cut(s) 221, 335, 630
MlsI TGGCCA 1 cut(s) 690
MluCI AATT 1 cut(s) 134
MluNI TGGCCA 1 cut(s) 690
Mly113I GGCGCC 1 cut(s) 117
MlyI GAGTC 5 cut(s) 52, 73, 197, 575, 641
MmeI TCCRAC 2 cut(s) 80, 287
MnlI CCTC 7 cut(s) 81, 102, 137, 140, 169, 288, 595
Mox20I TGGCCA 1 cut(s) 690
MroNI GCCGGC 1 cut(s) 298
MroXI GAANNNNTTC 2 cut(s) 414, 570
MscI TGGCCA 1 cut(s) 690
Msp20I TGGCCA 1 cut(s) 690
MspA1I CMGCKG 1 cut(s) 347
MspI CCGG 6 cut(s) 177, 215, 253, 299, 303, 336
MspR9I CCNGG 4 cut(s) 178, 216, 254, 598
MunI CAATTG 1 cut(s) 134
Mva1269I GAATGC 1 cut(s) 659
MvaI CCWGG 1 cut(s) 598
MwoI GCNNNNNNNGC 3 cut(s) 14, 254, 687
NaeI GCCGGC 1 cut(s) 300
NarI GGCGCC 1 cut(s) 117
NciI CCSGG 3 cut(s) 178, 216, 254
NdeII GATC 4 cut(s) 28, 121, 274, 373
NgoMIV GCCGGC 1 cut(s) 298
NlaIV GGNNCC 5 cut(s) 106, 118, 142, 276, 627
NmuCI GTSAC 4 cut(s) 208, 229, 529, 614
PcsI WCGNNNNNNNCGW 3 cut(s) 108, 117, 218
PctI GAATGC 1 cut(s) 659
PdiI GCCGGC 1 cut(s) 300
PdmI GAANNNNTTC 2 cut(s) 414, 570
PfeI GAWTC 3 cut(s) 46, 52, 88
PflMI CCANNNNNTGG 1 cut(s) 648
PleI GAGTC 5 cut(s) 52, 72, 197, 575, 640
PluTI GGCGCC 1 cut(s) 120
PpsI GAGTC 5 cut(s) 52, 72, 197, 575, 640
Psp124BI GAGCTC 1 cut(s) 335
Psp6I CCWGG 1 cut(s) 596
PspEI GGTNACC 1 cut(s) 614
PspGI CCWGG 1 cut(s) 596
PspN4I GGNNCC 5 cut(s) 106, 118, 142, 276, 627
PspPI GGNCC 4 cut(s) 141, 184, 250, 594
PstI CTGCAG 1 cut(s) 238
PsuI RGATCY 2 cut(s) 28, 274
PvuII CAGCTG 1 cut(s) 347
RsaI GTAC 2 cut(s) 355, 511
RsaNI GTAC 2 cut(s) 354, 510
SacI GAGCTC 1 cut(s) 335
Sau3AI GATC 4 cut(s) 28, 121, 274, 373
Sau96I GGNCC 4 cut(s) 141, 184, 250, 594
SchI GAGTC 5 cut(s) 52, 73, 197, 575, 641
ScrFI CCNGG 4 cut(s) 178, 216, 254, 598
SduI GDGCHC 3 cut(s) 221, 335, 630
SfcI CTRYAG 1 cut(s) 234
SfoI GGCGCC 1 cut(s) 118
SinI GGWCC 1 cut(s) 594
SmlI CTYRAG 1 cut(s) 440
SmoI CTYRAG 1 cut(s) 440
Sse9I AATT 1 cut(s) 134
SsiI CCGC 2 cut(s) 248, 328
SspDI GGCGCC 1 cut(s) 116
SspMI CTAG 2 cut(s) 453, 507
SstI GAGCTC 1 cut(s) 335
StyD4I CCNGG 4 cut(s) 176, 214, 252, 596
TaaI ACNGT 2 cut(s) 197, 667
TaiI ACGT 1 cut(s) 470
TaqI TCGA 3 cut(s) 111, 150, 391
TaqII GACCGA 1 cut(s) 387
TasI AATT 1 cut(s) 134
TatI WGTACW 2 cut(s) 353, 509
TfiI GAWTC 3 cut(s) 46, 52, 88
TscAI CASTG 4 cut(s) 213, 238, 596, 643
TseFI GTSAC 4 cut(s) 208, 229, 529, 614
Tsp45I GTSAC 4 cut(s) 208, 229, 529, 614
TspDTI ATGAA 1 cut(s) 136
TspGWI ACGGA 2 cut(s) 117, 460
TspRI CASTG 4 cut(s) 213, 238, 596, 643
Van91I CCANNNNNTGG 1 cut(s) 648
VpaK11BI GGWCC 1 cut(s) 594
XcmI CCANNNNNNNNNTGG 1 cut(s) 163
XmnI GAANNNNTTC 2 cut(s) 414, 570
XspI CTAG 2 cut(s) 453, 507
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.