Rw5G039950

methyl-CpG-binding domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0014187
Physical Location & Seq
Forward (+)
70580199 .. 70583301
3103 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G039950.1

Sequence Viewer

Length: 720 bp
ATGTCAGCCCCCGAAGCCTCTGGTAAAGATCTGAACCCGAACCCGAATCCGAATCCGACTCCGAGTCCGAGTCCACCTCATCAACACCACCTGAATCCTCCACCTGACGGAACCCTCGACGGCGCCGATCCCCTCCTCCAATCGGGGGCCTTCATCGACCCCACCACCACCCCCACCTCAGATATGGAAGAAACCGGGAAGGCCCAACCGAACGGTGTGGACTCAGTGACGCCGGGCACGAGTAATGTCACTGCAGACGGGTCGTCGGGCCGGGCTAAGGCGAAAGGGTGGGATCCTCAGGCTATGGATTGGTTGCCGGCCGGTTGGAGAGTGGAGTATAAAGTGCGGAGCTCCGGTGCTACAGCTGGAAGTACAGATAGGTATTACCACGATCCAGTCTCAGGTCGTCGATTTCGGTCGAAGAAAGAAGTCCTTCACTTTCTGGAAACAGGAACGCTCAAGAAGAACGCTAGTTCTGACAAAACGTCCGTGGAAGGTTCTGCGAGCAAAAAGCAAAAGAAGTCTAGTACAAAGCCCAGACCTGCTGTGAACTTTGATTTTTTTGATGTGCCTGCGAAGGTGGAATGGGTTCTCACAGACTCCTCTCAGTGGACCTGGACACCCTTTATCGGTGACCAAAAGGTGCCCGAGTCCACTGCCAAAGAATGGGCTACTGCATTCACAGTTTTCACATCCAGCAATAGTGGCCACACTCAATGA

Protein Analysis

239

Amino Acids

25.74

Weight (kDa)

6.6

Isoelectric Point (pI)

37.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MBD PF01429 103 - 153 1.7e-11 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) 550
AccB1I GGYRCC 2 cut(s) 122, 643
AccB7I CCANNNNNTGG 1 cut(s) 666
AciI CCGC 1 cut(s) 346
AclWI GGATC 4 cut(s) 122, 287, 300, 386
AcoI YGGCCR 2 cut(s) 318, 706
AcyI GRCGYC 2 cut(s) 123, 230
AfaI GTAC 2 cut(s) 373, 529
AfiI CCNNNNNNNGG 8 cut(s) 107, 142, 145, 277, 401, 609, 629, 666
AhdI GACNNNNNGTC 3 cut(s) 63, 262, 484
AjnI CCWGG 1 cut(s) 614
AluBI AGCT 2 cut(s) 351, 365
AluI AGCT 2 cut(s) 351, 365
Alw21I GWGCWC 1 cut(s) 353
Alw26I GTCTC 1 cut(s) 403
AlwI GGATC 4 cut(s) 122, 287, 300, 386
Ama87I CYCGRG 1 cut(s) 647
AoxI GGCC 5 cut(s) 147, 201, 268, 318, 706
Asp700I GAANNNNTTC 2 cut(s) 432, 588
AspLEI GCGC 1 cut(s) 125
AspS9I GGNCC 4 cut(s) 147, 202, 268, 612
AsuC2I CCSGG 3 cut(s) 196, 234, 272
AsuHPI GGTGA 1 cut(s) 644
AvaI CYCGRG 1 cut(s) 647
AvaII GGWCC 1 cut(s) 612
AxyI CCTNAGG 1 cut(s) 297
BaeGI GKGCMC 2 cut(s) 239, 648
BalI TGGCCA 1 cut(s) 708
BamHI GGATCC 1 cut(s) 292
BanI GGYRCC 2 cut(s) 122, 643
BanII GRGCYC 1 cut(s) 353
BauI CACGAG 1 cut(s) 238
Bbv12I GWGCWC 1 cut(s) 353
BceAI ACGGC 1 cut(s) 136
BcgI CGANNNNNNTGC 4 cut(s) 243, 277, 638, 672
BciT130I CCWGG 1 cut(s) 616
BcnI CCSGG 3 cut(s) 196, 234, 272
BcoDI GTCTC 1 cut(s) 403
BfaI CTAG 2 cut(s) 471, 525
BfmI CTRYAG 2 cut(s) 252, 360
BfoI RGCGCY 1 cut(s) 126
BfuAI ACCTGC 1 cut(s) 550
BglII AGATCT 1 cut(s) 28
Bme1390I CCNGG 4 cut(s) 196, 234, 272, 616
Bme18I GGWCC 1 cut(s) 612
BmeRI GACNNNNNGTC 3 cut(s) 63, 262, 484
BmeT110I CYCGRG 1 cut(s) 647
BmgT120I GGNCC 4 cut(s) 147, 202, 268, 612
BmiI GGNNCC 5 cut(s) 112, 124, 148, 294, 645
BmrFI CCNGG 4 cut(s) 196, 234, 272, 616
BplI GAGNNNNNCTC 2 cut(s) 61, 93
Bpu10I CCTNAGC 1 cut(s) 276
BpuEI CTTGAG 1 cut(s) 443
BpuMI CCSGG 3 cut(s) 196, 234, 272
BsaHI GRCGYC 2 cut(s) 123, 230
BsaJI CCNNGG 1 cut(s) 489
BsaWI WCCGGW 1 cut(s) 353
BsaXI ACNNNNNCTCC 2 cut(s) 340, 370
Bsc4I CCNNNNNNNGG 8 cut(s) 107, 142, 145, 277, 401, 609, 629, 666
Bse118I RCCGGY 2 cut(s) 316, 320
Bse1I ACTGG 1 cut(s) 395
Bse21I CCTNAGG 1 cut(s) 297
BseBI CCWGG 1 cut(s) 616
BseDI CCNNGG 1 cut(s) 489
BseGI GGATG 1 cut(s) 692
BseLI CCNNNNNNNGG 8 cut(s) 107, 142, 145, 277, 401, 609, 629, 666
BseMII CTCAG 5 cut(s) 192, 237, 311, 414, 620
BseNI ACTGG 1 cut(s) 395
BseRI GAGGAG 2 cut(s) 125, 592
BseSI GKGCMC 2 cut(s) 239, 648
BseX3I CGGCCG 1 cut(s) 318
Bsh1285I CGRYCG 2 cut(s) 321, 419
BshFI GGCC 5 cut(s) 149, 203, 270, 320, 708
BshNI GGYRCC 2 cut(s) 122, 643
BsiEI CGRYCG 2 cut(s) 321, 419
BsiHKAI GWGCWC 1 cut(s) 353
BsiHKCI CYCGRG 1 cut(s) 647
BsiSI CCGG 6 cut(s) 195, 233, 271, 317, 321, 354
BslI CCNNNNNNNGG 8 cut(s) 107, 142, 145, 277, 401, 609, 629, 666
BsmAI GTCTC 1 cut(s) 403
BsmI GAATGC 1 cut(s) 677
BsnI GGCC 5 cut(s) 149, 203, 270, 320, 708
BsoBI CYCGRG 1 cut(s) 647
Bsp1286I GDGCHC 3 cut(s) 239, 353, 648
Bsp143I GATC 4 cut(s) 28, 127, 292, 391
BspACI CCGC 1 cut(s) 346
BspANI GGCC 5 cut(s) 149, 203, 270, 320, 708
BspCNI CTCAG 5 cut(s) 191, 236, 310, 413, 619
BspLI GGNNCC 5 cut(s) 112, 124, 148, 294, 645
BspMAI CTGCAG 1 cut(s) 256
BspMI ACCTGC 1 cut(s) 550
BspPI GGATC 4 cut(s) 122, 287, 300, 386
BspT107I GGYRCC 2 cut(s) 122, 643
BsrFI RCCGGY 2 cut(s) 316, 320
BsrI ACTGG 1 cut(s) 395
BssAI RCCGGY 2 cut(s) 316, 320
BssECI CCNNGG 1 cut(s) 489
BssMI GATC 4 cut(s) 28, 127, 292, 391
BssNI GRCGYC 2 cut(s) 123, 230
BssSI CACGAG 1 cut(s) 238
Bst2BI CACGAG 1 cut(s) 238
Bst2UI CCWGG 1 cut(s) 616
Bst4CI ACNGT 2 cut(s) 215, 685
BstACI GRCGYC 2 cut(s) 123, 230
BstC8I GCNNGC 3 cut(s) 318, 505, 573
BstDEI CTNAG 6 cut(s) 178, 223, 276, 297, 400, 606
BstDSI CCRYGG 1 cut(s) 489
BstEII GGTNACC 1 cut(s) 632
BstF5I GGATG 1 cut(s) 692
BstH2I RGCGCY 1 cut(s) 126
BstHHI GCGC 1 cut(s) 125
BstKTI GATC 4 cut(s) 31, 130, 295, 394
BstMAI GTCTC 1 cut(s) 403
BstMBI GATC 4 cut(s) 28, 127, 292, 391
BstMCI CGRYCG 2 cut(s) 321, 419
BstMWI GCNNNNNNNGC 2 cut(s) 14, 705
BstNI CCWGG 1 cut(s) 616
BstPI GGTNACC 1 cut(s) 632
BstSCI CCNGG 4 cut(s) 194, 232, 270, 614
BstSFI CTRYAG 2 cut(s) 252, 360
BstSLI GKGCMC 2 cut(s) 239, 648
BstX2I RGATCY 2 cut(s) 28, 292
BstYI RGATCY 2 cut(s) 28, 292
BstZI CGGCCG 1 cut(s) 318
Bsu36I CCTNAGG 1 cut(s) 297
BsuRI GGCC 5 cut(s) 149, 203, 270, 320, 708
BtgI CCRYGG 1 cut(s) 489
BtsCI GGATG 1 cut(s) 692
BtsI GCAGTG 2 cut(s) 249, 654
BtsIMutI CAGTG 4 cut(s) 231, 249, 614, 654
BveI ACCTGC 1 cut(s) 550
Cac8I GCNNGC 3 cut(s) 318, 505, 573
CfoI GCGC 1 cut(s) 125
Cfr10I RCCGGY 2 cut(s) 316, 320
Cfr13I GGNCC 4 cut(s) 147, 202, 268, 612
CseI GACGC 1 cut(s) 238
Csp6I GTAC 2 cut(s) 372, 528
CviQI GTAC 2 cut(s) 372, 528
DdeI CTNAG 6 cut(s) 178, 223, 276, 297, 400, 606
DinI GGCGCC 1 cut(s) 124
DpnI GATC 4 cut(s) 30, 129, 294, 393
DpnII GATC 4 cut(s) 28, 127, 292, 391
DriI GACNNNNNGTC 3 cut(s) 63, 262, 484
EaeI YGGCCR 2 cut(s) 318, 706
EagI CGGCCG 1 cut(s) 318
Eam1105I GACNNNNNGTC 3 cut(s) 63, 262, 484
Ecl136II GAGCTC 1 cut(s) 351
EclXI CGGCCG 1 cut(s) 318
Eco24I GRGCYC 1 cut(s) 353
Eco47I GGWCC 1 cut(s) 612
Eco52I CGGCCG 1 cut(s) 318
Eco53kI GAGCTC 1 cut(s) 351
Eco81I CCTNAGG 1 cut(s) 297
Eco88I CYCGRG 1 cut(s) 647
Eco91I GGTNACC 1 cut(s) 632
EcoICRI GAGCTC 1 cut(s) 351
EcoO109I RGGNCCY 1 cut(s) 147
EcoO65I GGTNACC 1 cut(s) 632
EcoRII CCWGG 1 cut(s) 614
EcoT38I GRGCYC 1 cut(s) 353
EgeI GGCGCC 1 cut(s) 124
EheI GGCGCC 1 cut(s) 124
FaiI YATR 3 cut(s) 185, 305, 339
FalI AAGNNNNNCTT 2 cut(s) 417, 449
FokI GGATG 1 cut(s) 679
FriOI GRGCYC 1 cut(s) 353
FspBI CTAG 2 cut(s) 471, 525
GlaI GCGC 1 cut(s) 124
HaeII RGCGCY 1 cut(s) 126
HaeIII GGCC 5 cut(s) 149, 203, 270, 320, 708
HapII CCGG 6 cut(s) 195, 233, 271, 317, 321, 354
HgaI GACGC 1 cut(s) 238
HhaI GCGC 1 cut(s) 125
Hin1I GRCGYC 2 cut(s) 123, 230
Hin6I GCGC 1 cut(s) 123
HinP1I GCGC 1 cut(s) 123
HinfI GANTC 9 cut(s) 46, 52, 58, 64, 70, 94, 221, 599, 650
HpaII CCGG 6 cut(s) 195, 233, 271, 317, 321, 354
HphI GGTGA 1 cut(s) 644
Hpy166II GTNNAC 5 cut(s) 74, 220, 550, 612, 654
Hpy188I TCNGA 7 cut(s) 33, 51, 57, 63, 69, 181, 478
Hpy188III TCNNGA 2 cut(s) 443, 460
Hpy8I GTNNAC 5 cut(s) 74, 220, 550, 612, 654
Hpy99I CGWCG 3 cut(s) 122, 268, 411
HpyAV CCTTC 5 cut(s) 160, 193, 443, 488, 571
HpyCH4III ACNGT 2 cut(s) 215, 685
HpyCH4IV ACGT 1 cut(s) 485
HpyCH4V TGCA 2 cut(s) 254, 677
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 705
HpyF3I CTNAG 6 cut(s) 178, 223, 276, 297, 400, 606
HpySE526I ACGT 1 cut(s) 485
Hsp92I GRCGYC 2 cut(s) 123, 230
HspAI GCGC 1 cut(s) 123
KasI GGCGCC 1 cut(s) 122
KroI GCCGGC 1 cut(s) 316
KroNI GCCGGC 1 cut(s) 318
Kzo9I GATC 4 cut(s) 28, 127, 292, 391
LmnI GCTCC 2 cut(s) 348, 356
MaeI CTAG 2 cut(s) 471, 525
MaeII ACGT 1 cut(s) 485
MaeIII GTNAC 3 cut(s) 226, 247, 632
MalI GATC 4 cut(s) 30, 129, 294, 393
MboI GATC 4 cut(s) 28, 127, 292, 391
MboII GAAGA 3 cut(s) 200, 433, 475
MflI RGATCY 2 cut(s) 28, 292
MhlI GDGCHC 3 cut(s) 239, 353, 648
MlsI TGGCCA 1 cut(s) 708
MluNI TGGCCA 1 cut(s) 708
Mly113I GGCGCC 1 cut(s) 123
MlyI GAGTC 6 cut(s) 52, 73, 79, 215, 593, 659
MmeI TCCRAC 2 cut(s) 80, 305
MnlI CCTC 9 cut(s) 28, 87, 108, 125, 143, 146, 187, 306, 613
Mox20I TGGCCA 1 cut(s) 708
MroNI GCCGGC 1 cut(s) 316
MroXI GAANNNNTTC 2 cut(s) 432, 588
MscI TGGCCA 1 cut(s) 708
Msp20I TGGCCA 1 cut(s) 708
MspA1I CMGCKG 1 cut(s) 365
MspI CCGG 6 cut(s) 195, 233, 271, 317, 321, 354
MspR9I CCNGG 4 cut(s) 196, 234, 272, 616
Mva1269I GAATGC 1 cut(s) 677
MvaI CCWGG 1 cut(s) 616
MwoI GCNNNNNNNGC 2 cut(s) 14, 705
NaeI GCCGGC 1 cut(s) 318
NarI GGCGCC 1 cut(s) 123
NciI CCSGG 3 cut(s) 196, 234, 272
NdeII GATC 4 cut(s) 28, 127, 292, 391
NgoMIV GCCGGC 1 cut(s) 316
NlaIV GGNNCC 5 cut(s) 112, 124, 148, 294, 645
NmuCI GTSAC 3 cut(s) 226, 247, 632
PcsI WCGNNNNNNNCGW 3 cut(s) 114, 123, 236
PctI GAATGC 1 cut(s) 677
PdiI GCCGGC 1 cut(s) 318
PdmI GAANNNNTTC 2 cut(s) 432, 588
PfeI GAWTC 3 cut(s) 46, 52, 94
PflMI CCANNNNNTGG 1 cut(s) 666
PleI GAGTC 6 cut(s) 52, 72, 78, 215, 593, 658
PluTI GGCGCC 1 cut(s) 126
PpsI GAGTC 6 cut(s) 52, 72, 78, 215, 593, 658
Psp124BI GAGCTC 1 cut(s) 353
Psp6I CCWGG 1 cut(s) 614
PspEI GGTNACC 1 cut(s) 632
PspGI CCWGG 1 cut(s) 614
PspN4I GGNNCC 5 cut(s) 112, 124, 148, 294, 645
PspPI GGNCC 4 cut(s) 147, 202, 268, 612
PstI CTGCAG 1 cut(s) 256
PsuI RGATCY 2 cut(s) 28, 292
PvuII CAGCTG 1 cut(s) 365
RsaI GTAC 2 cut(s) 373, 529
RsaNI GTAC 2 cut(s) 372, 528
SacI GAGCTC 1 cut(s) 353
Sau3AI GATC 4 cut(s) 28, 127, 292, 391
Sau96I GGNCC 4 cut(s) 147, 202, 268, 612
SchI GAGTC 6 cut(s) 52, 73, 79, 215, 593, 659
ScrFI CCNGG 4 cut(s) 196, 234, 272, 616
SduI GDGCHC 3 cut(s) 239, 353, 648
SfcI CTRYAG 2 cut(s) 252, 360
SfoI GGCGCC 1 cut(s) 124
SinI GGWCC 1 cut(s) 612
SmlI CTYRAG 1 cut(s) 458
SmoI CTYRAG 1 cut(s) 458
SsiI CCGC 1 cut(s) 346
SspDI GGCGCC 1 cut(s) 122
SspMI CTAG 2 cut(s) 471, 525
SstI GAGCTC 1 cut(s) 353
StyD4I CCNGG 4 cut(s) 194, 232, 270, 614
TaaI ACNGT 2 cut(s) 215, 685
TaiI ACGT 1 cut(s) 488
TaqI TCGA 4 cut(s) 117, 156, 409, 419
TaqII GACCGA 1 cut(s) 405
TatI WGTACW 2 cut(s) 371, 527
TfiI GAWTC 3 cut(s) 46, 52, 94
TscAI CASTG 4 cut(s) 231, 256, 614, 661
TseFI GTSAC 3 cut(s) 226, 247, 632
Tsp45I GTSAC 3 cut(s) 226, 247, 632
TspDTI ATGAA 1 cut(s) 142
TspGWI ACGGA 2 cut(s) 123, 478
TspRI CASTG 4 cut(s) 231, 256, 614, 661
Van91I CCANNNNNTGG 1 cut(s) 666
VpaK11BI GGWCC 1 cut(s) 612
XcmI CCANNNNNNNNNTGG 1 cut(s) 181
XmnI GAANNNNTTC 2 cut(s) 432, 588
XspI CTAG 2 cut(s) 471, 525
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.