RchiOBHm_Chr5g0064931

methyl-CpG-binding domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0014187
Physical Location & Seq
Forward (+)
70841018 .. 70844731
3714 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 708 bp
ATGTCAGCCTCTGCAGCTTCTGGTAAAGATCTGAACCCGAACCCGAATCCGACTCCGAGTCCACCTCATCAACACCACCTGAATCCTCCACCTGACGGAACCCTCGACGGCGCCGATCCCCTCCTCCAATCGGGGGCCTTCATCGACCCCACCACCACCCCCACCTCAGATATGGAAGAAACCGGGAAGGCCCAACCGAACGGTGTGGACTCAGTGACGCCGGGCACGAGTAATGTCACTGCAGACGGGTCGGCGGGCCGGGCTAAGGCGAAAGGGTCGGATCCTCAGGCTATGGATTGGTTGCCGGCCGGTTGGAGAGTGGAGTATAAAGTGCGGAGCTCCGGTGCTACAGCTGGAAGTACAGATAGGTATTACCACGATCCAGTCTCAGGTCGTCGATTTCGGTCAAAGAAAGAAGTCCTTCACTTTCTGGAAACAGGAACGCTCAAGAAGAACGCTAGTTCTGACAAAACGTCCGTGGAAGGTTCTGCGAGCAAAAAGCAAAGGAAGTCTAGTACAAAGCCCAGACCTGCTGTGAACTTTGATTTTTTTGATGTGCCTGCGAAGGTGGAATGGGTTCTCACAGACTCCTCTCAGTGGACCTGGACACCCTTTATCGGTGACCAAAGGGTGCCCGAGTCCACTGCCAAAGAATGGGCTACTGCATTCACAGTTTTCACATCCAGCAATAGTGGCCACACTCAATGA

Protein Analysis

235

Amino Acids

25.22

Weight (kDa)

7.03

Isoelectric Point (pI)

32.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MBD PF01429 99 - 149 1.5e-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) 538
AccB1I GGYRCC 2 cut(s) 110, 631
AccB7I CCANNNNNTGG 1 cut(s) 654
AciI CCGC 2 cut(s) 254, 334
AclWI GGATC 4 cut(s) 110, 275, 288, 374
AcoI YGGCCR 2 cut(s) 306, 694
AcyI GRCGYC 2 cut(s) 111, 218
AfaI GTAC 2 cut(s) 361, 517
AfiI CCNNNNNNNGG 8 cut(s) 95, 130, 133, 265, 389, 597, 617, 654
AhdI GACNNNNNGTC 2 cut(s) 57, 472
AjnI CCWGG 1 cut(s) 602
AluBI AGCT 3 cut(s) 17, 339, 353
AluI AGCT 3 cut(s) 17, 339, 353
Alw21I GWGCWC 1 cut(s) 341
Alw26I GTCTC 1 cut(s) 391
AlwI GGATC 4 cut(s) 110, 275, 288, 374
AlwNI CAGNNNCTG 2 cut(s) 11, 20
Ama87I CYCGRG 1 cut(s) 635
AoxI GGCC 5 cut(s) 135, 189, 256, 306, 694
ApeKI GCWGC 1 cut(s) 14
Asp700I GAANNNNTTC 2 cut(s) 420, 576
AspLEI GCGC 1 cut(s) 113
AspS9I GGNCC 4 cut(s) 135, 190, 256, 600
AsuC2I CCSGG 3 cut(s) 184, 222, 260
AsuHPI GGTGA 1 cut(s) 632
AvaI CYCGRG 1 cut(s) 635
AvaII GGWCC 1 cut(s) 600
AxyI CCTNAGG 1 cut(s) 285
BaeGI GKGCMC 2 cut(s) 227, 636
BalI TGGCCA 1 cut(s) 696
BamHI GGATCC 1 cut(s) 280
BanI GGYRCC 2 cut(s) 110, 631
BanII GRGCYC 1 cut(s) 341
BauI CACGAG 1 cut(s) 226
Bbv12I GWGCWC 1 cut(s) 341
BbvI GCAGC 1 cut(s) 26
BceAI ACGGC 1 cut(s) 124
BcgI CGANNNNNNTGC 4 cut(s) 231, 265, 626, 660
BciT130I CCWGG 1 cut(s) 604
BcnI CCSGG 3 cut(s) 184, 222, 260
BcoDI GTCTC 1 cut(s) 391
BfaI CTAG 2 cut(s) 459, 513
BfmI CTRYAG 3 cut(s) 12, 240, 348
BfoI RGCGCY 1 cut(s) 114
BfuAI ACCTGC 1 cut(s) 538
BglII AGATCT 1 cut(s) 28
BisI GCNGC 1 cut(s) 15
BlsI GCNGC 1 cut(s) 16
Bme1390I CCNGG 4 cut(s) 184, 222, 260, 604
Bme18I GGWCC 1 cut(s) 600
BmeRI GACNNNNNGTC 2 cut(s) 57, 472
BmeT110I CYCGRG 1 cut(s) 635
BmgT120I GGNCC 4 cut(s) 135, 190, 256, 600
BmiI GGNNCC 5 cut(s) 100, 112, 136, 282, 633
BmrFI CCNGG 4 cut(s) 184, 222, 260, 604
BplI GAGNNNNNCTC 2 cut(s) 49, 81
Bpu10I CCTNAGC 1 cut(s) 264
BpuEI CTTGAG 1 cut(s) 431
BpuMI CCSGG 3 cut(s) 184, 222, 260
BsaHI GRCGYC 2 cut(s) 111, 218
BsaJI CCNNGG 1 cut(s) 477
BsaWI WCCGGW 1 cut(s) 341
BsaXI ACNNNNNCTCC 2 cut(s) 328, 358
Bsc4I CCNNNNNNNGG 8 cut(s) 95, 130, 133, 265, 389, 597, 617, 654
Bse118I RCCGGY 2 cut(s) 304, 308
Bse1I ACTGG 1 cut(s) 383
Bse21I CCTNAGG 1 cut(s) 285
BseBI CCWGG 1 cut(s) 604
BseDI CCNNGG 1 cut(s) 477
BseGI GGATG 1 cut(s) 680
BseLI CCNNNNNNNGG 8 cut(s) 95, 130, 133, 265, 389, 597, 617, 654
BseMII CTCAG 5 cut(s) 180, 225, 299, 402, 608
BseNI ACTGG 1 cut(s) 383
BseRI GAGGAG 2 cut(s) 113, 580
BseSI GKGCMC 2 cut(s) 227, 636
BseX3I CGGCCG 1 cut(s) 306
BseXI GCAGC 1 cut(s) 26
Bsh1285I CGRYCG 1 cut(s) 309
BshFI GGCC 5 cut(s) 137, 191, 258, 308, 696
BshNI GGYRCC 2 cut(s) 110, 631
BsiEI CGRYCG 1 cut(s) 309
BsiHKAI GWGCWC 1 cut(s) 341
BsiHKCI CYCGRG 1 cut(s) 635
BsiSI CCGG 6 cut(s) 183, 221, 259, 305, 309, 342
BslI CCNNNNNNNGG 8 cut(s) 95, 130, 133, 265, 389, 597, 617, 654
BsmAI GTCTC 1 cut(s) 391
BsmI GAATGC 1 cut(s) 665
BsnI GGCC 5 cut(s) 137, 191, 258, 308, 696
BsoBI CYCGRG 1 cut(s) 635
Bsp1286I GDGCHC 3 cut(s) 227, 341, 636
Bsp143I GATC 4 cut(s) 28, 115, 280, 379
BspACI CCGC 2 cut(s) 254, 334
BspANI GGCC 5 cut(s) 137, 191, 258, 308, 696
BspCNI CTCAG 5 cut(s) 179, 224, 298, 401, 607
BspLI GGNNCC 5 cut(s) 100, 112, 136, 282, 633
BspMAI CTGCAG 2 cut(s) 16, 244
BspMI ACCTGC 1 cut(s) 538
BspPI GGATC 4 cut(s) 110, 275, 288, 374
BspT107I GGYRCC 2 cut(s) 110, 631
BsrFI RCCGGY 2 cut(s) 304, 308
BsrI ACTGG 1 cut(s) 383
BssAI RCCGGY 2 cut(s) 304, 308
BssECI CCNNGG 1 cut(s) 477
BssMI GATC 4 cut(s) 28, 115, 280, 379
BssNI GRCGYC 2 cut(s) 111, 218
BssSI CACGAG 1 cut(s) 226
Bst2BI CACGAG 1 cut(s) 226
Bst2UI CCWGG 1 cut(s) 604
Bst4CI ACNGT 2 cut(s) 203, 673
BstACI GRCGYC 2 cut(s) 111, 218
BstC8I GCNNGC 4 cut(s) 256, 306, 493, 561
BstDEI CTNAG 6 cut(s) 166, 211, 264, 285, 388, 594
BstDSI CCRYGG 1 cut(s) 477
BstEII GGTNACC 1 cut(s) 620
BstF5I GGATG 1 cut(s) 680
BstH2I RGCGCY 1 cut(s) 114
BstHHI GCGC 1 cut(s) 113
BstKTI GATC 4 cut(s) 31, 118, 283, 382
BstMAI GTCTC 1 cut(s) 391
BstMBI GATC 4 cut(s) 28, 115, 280, 379
BstMCI CGRYCG 1 cut(s) 309
BstMWI GCNNNNNNNGC 3 cut(s) 14, 260, 693
BstNI CCWGG 1 cut(s) 604
BstPI GGTNACC 1 cut(s) 620
BstSCI CCNGG 4 cut(s) 182, 220, 258, 602
BstSFI CTRYAG 3 cut(s) 12, 240, 348
BstSLI GKGCMC 2 cut(s) 227, 636
BstV1I GCAGC 1 cut(s) 26
BstX2I RGATCY 2 cut(s) 28, 280
BstYI RGATCY 2 cut(s) 28, 280
BstZI CGGCCG 1 cut(s) 306
Bsu36I CCTNAGG 1 cut(s) 285
BsuRI GGCC 5 cut(s) 137, 191, 258, 308, 696
BtgI CCRYGG 1 cut(s) 477
BtsCI GGATG 1 cut(s) 680
BtsI GCAGTG 2 cut(s) 237, 642
BtsIMutI CAGTG 4 cut(s) 219, 237, 602, 642
BveI ACCTGC 1 cut(s) 538
Cac8I GCNNGC 4 cut(s) 256, 306, 493, 561
CaiI CAGNNNCTG 2 cut(s) 11, 20
CfoI GCGC 1 cut(s) 113
Cfr10I RCCGGY 2 cut(s) 304, 308
Cfr13I GGNCC 4 cut(s) 135, 190, 256, 600
CseI GACGC 1 cut(s) 226
Csp6I GTAC 2 cut(s) 360, 516
CviQI GTAC 2 cut(s) 360, 516
DdeI CTNAG 6 cut(s) 166, 211, 264, 285, 388, 594
DinI GGCGCC 1 cut(s) 112
DpnI GATC 4 cut(s) 30, 117, 282, 381
DpnII GATC 4 cut(s) 28, 115, 280, 379
DriI GACNNNNNGTC 2 cut(s) 57, 472
EaeI YGGCCR 2 cut(s) 306, 694
EagI CGGCCG 1 cut(s) 306
Eam1105I GACNNNNNGTC 2 cut(s) 57, 472
Ecl136II GAGCTC 1 cut(s) 339
EclXI CGGCCG 1 cut(s) 306
Eco24I GRGCYC 1 cut(s) 341
Eco47I GGWCC 1 cut(s) 600
Eco52I CGGCCG 1 cut(s) 306
Eco53kI GAGCTC 1 cut(s) 339
Eco81I CCTNAGG 1 cut(s) 285
Eco88I CYCGRG 1 cut(s) 635
Eco91I GGTNACC 1 cut(s) 620
EcoICRI GAGCTC 1 cut(s) 339
EcoO109I RGGNCCY 1 cut(s) 135
EcoO65I GGTNACC 1 cut(s) 620
EcoRII CCWGG 1 cut(s) 602
EcoT38I GRGCYC 1 cut(s) 341
EgeI GGCGCC 1 cut(s) 112
EheI GGCGCC 1 cut(s) 112
FaiI YATR 3 cut(s) 173, 293, 327
FalI AAGNNNNNCTT 2 cut(s) 405, 437
FauI CCCGC 1 cut(s) 247
Fnu4HI GCNGC 1 cut(s) 15
FokI GGATG 1 cut(s) 667
FriOI GRGCYC 1 cut(s) 341
Fsp4HI GCNGC 1 cut(s) 15
FspBI CTAG 2 cut(s) 459, 513
GlaI GCGC 1 cut(s) 112
GluI GCNGC 1 cut(s) 15
HaeII RGCGCY 1 cut(s) 114
HaeIII GGCC 5 cut(s) 137, 191, 258, 308, 696
HapII CCGG 6 cut(s) 183, 221, 259, 305, 309, 342
HgaI GACGC 1 cut(s) 226
HhaI GCGC 1 cut(s) 113
Hin1I GRCGYC 2 cut(s) 111, 218
Hin6I GCGC 1 cut(s) 111
HinP1I GCGC 1 cut(s) 111
HinfI GANTC 7 cut(s) 46, 52, 58, 82, 209, 587, 638
HpaII CCGG 6 cut(s) 183, 221, 259, 305, 309, 342
HphI GGTGA 1 cut(s) 632
Hpy166II GTNNAC 5 cut(s) 62, 208, 538, 600, 642
Hpy188I TCNGA 6 cut(s) 33, 51, 57, 169, 280, 466
Hpy188III TCNNGA 2 cut(s) 431, 448
Hpy8I GTNNAC 5 cut(s) 62, 208, 538, 600, 642
Hpy99I CGWCG 2 cut(s) 110, 399
HpyAV CCTTC 5 cut(s) 148, 181, 431, 476, 559
HpyCH4III ACNGT 2 cut(s) 203, 673
HpyCH4IV ACGT 1 cut(s) 473
HpyCH4V TGCA 3 cut(s) 14, 242, 665
HpyF10VI GCNNNNNNNGC 3 cut(s) 14, 260, 693
HpyF3I CTNAG 6 cut(s) 166, 211, 264, 285, 388, 594
HpySE526I ACGT 1 cut(s) 473
Hsp92I GRCGYC 2 cut(s) 111, 218
HspAI GCGC 1 cut(s) 111
KasI GGCGCC 1 cut(s) 110
KroI GCCGGC 1 cut(s) 304
KroNI GCCGGC 1 cut(s) 306
Kzo9I GATC 4 cut(s) 28, 115, 280, 379
LmnI GCTCC 2 cut(s) 336, 344
Lsp1109I GCAGC 1 cut(s) 26
MaeI CTAG 2 cut(s) 459, 513
MaeII ACGT 1 cut(s) 473
MaeIII GTNAC 3 cut(s) 214, 235, 620
MalI GATC 4 cut(s) 30, 117, 282, 381
MboI GATC 4 cut(s) 28, 115, 280, 379
MboII GAAGA 2 cut(s) 188, 463
MflI RGATCY 2 cut(s) 28, 280
MhlI GDGCHC 3 cut(s) 227, 341, 636
MlsI TGGCCA 1 cut(s) 696
MluNI TGGCCA 1 cut(s) 696
Mly113I GGCGCC 1 cut(s) 111
MlyI GAGTC 5 cut(s) 46, 67, 203, 581, 647
MmeI TCCRAC 3 cut(s) 74, 258, 293
MnlI CCTC 9 cut(s) 19, 75, 96, 113, 131, 134, 175, 294, 601
Mox20I TGGCCA 1 cut(s) 696
MroNI GCCGGC 1 cut(s) 304
MroXI GAANNNNTTC 2 cut(s) 420, 576
MscI TGGCCA 1 cut(s) 696
Msp20I TGGCCA 1 cut(s) 696
MspA1I CMGCKG 1 cut(s) 353
MspI CCGG 6 cut(s) 183, 221, 259, 305, 309, 342
MspR9I CCNGG 4 cut(s) 184, 222, 260, 604
Mva1269I GAATGC 1 cut(s) 665
MvaI CCWGG 1 cut(s) 604
MwoI GCNNNNNNNGC 3 cut(s) 14, 260, 693
NaeI GCCGGC 1 cut(s) 306
NarI GGCGCC 1 cut(s) 111
NciI CCSGG 3 cut(s) 184, 222, 260
NdeII GATC 4 cut(s) 28, 115, 280, 379
NgoMIV GCCGGC 1 cut(s) 304
NlaIV GGNNCC 5 cut(s) 100, 112, 136, 282, 633
NmuCI GTSAC 3 cut(s) 214, 235, 620
PcsI WCGNNNNNNNCGW 3 cut(s) 102, 111, 224
PctI GAATGC 1 cut(s) 665
PdiI GCCGGC 1 cut(s) 306
PdmI GAANNNNTTC 2 cut(s) 420, 576
PfeI GAWTC 2 cut(s) 46, 82
PflMI CCANNNNNTGG 1 cut(s) 654
PkrI GCNGC 1 cut(s) 16
PleI GAGTC 5 cut(s) 46, 66, 203, 581, 646
PluTI GGCGCC 1 cut(s) 114
PpsI GAGTC 5 cut(s) 46, 66, 203, 581, 646
Psp124BI GAGCTC 1 cut(s) 341
Psp6I CCWGG 1 cut(s) 602
PspEI GGTNACC 1 cut(s) 620
PspGI CCWGG 1 cut(s) 602
PspN4I GGNNCC 5 cut(s) 100, 112, 136, 282, 633
PspPI GGNCC 4 cut(s) 135, 190, 256, 600
PstI CTGCAG 2 cut(s) 16, 244
PstNI CAGNNNCTG 2 cut(s) 11, 20
PsuI RGATCY 2 cut(s) 28, 280
PvuII CAGCTG 1 cut(s) 353
RsaI GTAC 2 cut(s) 361, 517
RsaNI GTAC 2 cut(s) 360, 516
SacI GAGCTC 1 cut(s) 341
SatI GCNGC 1 cut(s) 15
Sau3AI GATC 4 cut(s) 28, 115, 280, 379
Sau96I GGNCC 4 cut(s) 135, 190, 256, 600
SchI GAGTC 5 cut(s) 46, 67, 203, 581, 647
ScrFI CCNGG 4 cut(s) 184, 222, 260, 604
SduI GDGCHC 3 cut(s) 227, 341, 636
SfcI CTRYAG 3 cut(s) 12, 240, 348
SfoI GGCGCC 1 cut(s) 112
SinI GGWCC 1 cut(s) 600
SmlI CTYRAG 1 cut(s) 446
SmoI CTYRAG 1 cut(s) 446
SsiI CCGC 2 cut(s) 254, 334
SspDI GGCGCC 1 cut(s) 110
SspMI CTAG 2 cut(s) 459, 513
SstI GAGCTC 1 cut(s) 341
StyD4I CCNGG 4 cut(s) 182, 220, 258, 602
TaaI ACNGT 2 cut(s) 203, 673
TaiI ACGT 1 cut(s) 476
TaqI TCGA 3 cut(s) 105, 144, 397
TaqII GACCGA 1 cut(s) 393
TatI WGTACW 2 cut(s) 359, 515
TfiI GAWTC 2 cut(s) 46, 82
TscAI CASTG 4 cut(s) 219, 244, 602, 649
TseFI GTSAC 3 cut(s) 214, 235, 620
TseI GCWGC 1 cut(s) 14
Tsp45I GTSAC 3 cut(s) 214, 235, 620
TspDTI ATGAA 1 cut(s) 130
TspGWI ACGGA 2 cut(s) 111, 466
TspRI CASTG 4 cut(s) 219, 244, 602, 649
Van91I CCANNNNNTGG 1 cut(s) 654
VpaK11BI GGWCC 1 cut(s) 600
XcmI CCANNNNNNNNNTGG 1 cut(s) 169
XmnI GAANNNNTTC 2 cut(s) 420, 576
XspI CTAG 2 cut(s) 459, 513
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.