Rh5AG425200

methyl-CpG-binding domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0014187
Physical Location & Seq
Forward (+)
73358260 .. 73362186
3927 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG425200.1

Sequence Viewer

Length: 696 bp
ATGTCAGCCCCTGCAGCTTCTGGTAAAGATCTGAACCCGAACCCGAATCCGACTCCGACTCCACCTCATCAACACCACCTGAATCCTCCACCTGACGGAACCCTCGACGGCGCCGATCCCCTCCTCCAATCGGGGGCCTTCATCGACCCCACCTCAGATATGGAAGAAACCGGGAAGGCCCAACCGAACGGTGTGGACTCAGTGACGCCGGGCACGAGTAATGTCACTGCAGACGGGTCGGCGGGCCGGGCTAAGGCGAAAGGGTCGGATCCTCAGGCTATGGATTGGTTGCCGGCCGGGTGGAGAGTGGAGTATAAAGTGCGGAGCTCCGGTGCTACAGCTGGAAGTACAGATAGGTATTACCACGATCCAGTCTCAGGTCGTCGATTTCGGTCAAAGAAAGAAGTCCTTCACTTTCTGGAAACAGGAACGCTCAAGAAGAACGCTAGTTCTGACAAAACGTCCGTGGAAGGTTCTGCGAGCAAAAAGCAAAGGAAGTCTAGTACAAAGCCCAGACCTGCTGTGAACTTTGATTTTTTTGATGTGCCTGCGAAGGTGGAATGGGTTCTCACAGACTCCTCTCAGTGGACCTGGACACCCTTTATCGGTGACCAAAAGGTGCCCGAGTCCACTGCCAAAGAATGGGCTACTGCATTCACAGTTTTCACATCCAGCAATAGTGGCCACACTCAATGA

Protein Analysis

231

Amino Acids

24.81

Weight (kDa)

7.03

Isoelectric Point (pI)

31.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MBD PF01429 95 - 145 1.4e-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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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) 526
AccB1I GGYRCC 2 cut(s) 110, 619
AccB7I CCANNNNNTGG 1 cut(s) 642
AciI CCGC 2 cut(s) 242, 322
AclWI GGATC 4 cut(s) 110, 263, 276, 362
AcoI YGGCCR 2 cut(s) 294, 682
AcyI GRCGYC 2 cut(s) 111, 206
AfaI GTAC 2 cut(s) 349, 505
AfiI CCNNNNNNNGG 8 cut(s) 95, 130, 133, 253, 377, 585, 605, 642
AhdI GACNNNNNGTC 1 cut(s) 460
AjnI CCWGG 1 cut(s) 590
AluBI AGCT 3 cut(s) 17, 327, 341
AluI AGCT 3 cut(s) 17, 327, 341
Alw21I GWGCWC 1 cut(s) 329
Alw26I GTCTC 1 cut(s) 379
AlwI GGATC 4 cut(s) 110, 263, 276, 362
AlwNI CAGNNNCTG 2 cut(s) 11, 20
Ama87I CYCGRG 1 cut(s) 623
AoxI GGCC 5 cut(s) 135, 177, 244, 294, 682
ApeKI GCWGC 1 cut(s) 14
Asp700I GAANNNNTTC 2 cut(s) 408, 564
AspLEI GCGC 1 cut(s) 113
AspS9I GGNCC 4 cut(s) 135, 178, 244, 588
AsuC2I CCSGG 4 cut(s) 172, 210, 248, 298
AsuHPI GGTGA 1 cut(s) 620
AvaI CYCGRG 1 cut(s) 623
AvaII GGWCC 1 cut(s) 588
AxyI CCTNAGG 1 cut(s) 273
BaeGI GKGCMC 2 cut(s) 215, 624
BalI TGGCCA 1 cut(s) 684
BamHI GGATCC 1 cut(s) 268
BanI GGYRCC 2 cut(s) 110, 619
BanII GRGCYC 1 cut(s) 329
BauI CACGAG 1 cut(s) 214
Bbv12I GWGCWC 1 cut(s) 329
BbvI GCAGC 1 cut(s) 26
BceAI ACGGC 1 cut(s) 124
BcgI CGANNNNNNTGC 4 cut(s) 219, 253, 614, 648
BciT130I CCWGG 1 cut(s) 592
BcnI CCSGG 4 cut(s) 172, 210, 248, 298
BcoDI GTCTC 1 cut(s) 379
BfaI CTAG 2 cut(s) 447, 501
BfmI CTRYAG 3 cut(s) 12, 228, 336
BfoI RGCGCY 1 cut(s) 114
BfuAI ACCTGC 1 cut(s) 526
BglII AGATCT 1 cut(s) 28
BisI GCNGC 1 cut(s) 15
BlsI GCNGC 1 cut(s) 16
Bme1390I CCNGG 5 cut(s) 172, 210, 248, 298, 592
Bme18I GGWCC 1 cut(s) 588
BmeRI GACNNNNNGTC 1 cut(s) 460
BmeT110I CYCGRG 1 cut(s) 623
BmgT120I GGNCC 4 cut(s) 135, 178, 244, 588
BmiI GGNNCC 5 cut(s) 100, 112, 136, 270, 621
BmrFI CCNGG 5 cut(s) 172, 210, 248, 298, 592
Bpu10I CCTNAGC 1 cut(s) 252
BpuEI CTTGAG 1 cut(s) 419
BpuMI CCSGG 4 cut(s) 172, 210, 248, 298
BsaHI GRCGYC 2 cut(s) 111, 206
BsaJI CCNNGG 1 cut(s) 465
BsaWI WCCGGW 1 cut(s) 329
BsaXI ACNNNNNCTCC 4 cut(s) 43, 73, 316, 346
Bsc4I CCNNNNNNNGG 8 cut(s) 95, 130, 133, 253, 377, 585, 605, 642
Bse118I RCCGGY 1 cut(s) 292
Bse1I ACTGG 1 cut(s) 371
Bse21I CCTNAGG 1 cut(s) 273
BseBI CCWGG 1 cut(s) 592
BseDI CCNNGG 1 cut(s) 465
BseGI GGATG 1 cut(s) 668
BseLI CCNNNNNNNGG 8 cut(s) 95, 130, 133, 253, 377, 585, 605, 642
BseMII CTCAG 5 cut(s) 168, 213, 287, 390, 596
BseNI ACTGG 1 cut(s) 371
BseRI GAGGAG 2 cut(s) 113, 568
BseSI GKGCMC 2 cut(s) 215, 624
BseX3I CGGCCG 1 cut(s) 294
BseXI GCAGC 1 cut(s) 26
Bsh1285I CGRYCG 1 cut(s) 297
BshFI GGCC 5 cut(s) 137, 179, 246, 296, 684
BshNI GGYRCC 2 cut(s) 110, 619
BsiEI CGRYCG 1 cut(s) 297
BsiHKAI GWGCWC 1 cut(s) 329
BsiHKCI CYCGRG 1 cut(s) 623
BsiSI CCGG 6 cut(s) 171, 209, 247, 293, 297, 330
BslI CCNNNNNNNGG 8 cut(s) 95, 130, 133, 253, 377, 585, 605, 642
BsmAI GTCTC 1 cut(s) 379
BsmI GAATGC 1 cut(s) 653
BsnI GGCC 5 cut(s) 137, 179, 246, 296, 684
BsoBI CYCGRG 1 cut(s) 623
Bsp1286I GDGCHC 3 cut(s) 215, 329, 624
Bsp143I GATC 4 cut(s) 28, 115, 268, 367
BspACI CCGC 2 cut(s) 242, 322
BspANI GGCC 5 cut(s) 137, 179, 246, 296, 684
BspCNI CTCAG 5 cut(s) 167, 212, 286, 389, 595
BspLI GGNNCC 5 cut(s) 100, 112, 136, 270, 621
BspMAI CTGCAG 2 cut(s) 16, 232
BspMI ACCTGC 1 cut(s) 526
BspPI GGATC 4 cut(s) 110, 263, 276, 362
BspT107I GGYRCC 2 cut(s) 110, 619
BsrFI RCCGGY 1 cut(s) 292
BsrI ACTGG 1 cut(s) 371
BssAI RCCGGY 1 cut(s) 292
BssECI CCNNGG 1 cut(s) 465
BssMI GATC 4 cut(s) 28, 115, 268, 367
BssNI GRCGYC 2 cut(s) 111, 206
BssSI CACGAG 1 cut(s) 214
Bst2BI CACGAG 1 cut(s) 214
Bst2UI CCWGG 1 cut(s) 592
Bst4CI ACNGT 2 cut(s) 191, 661
BstACI GRCGYC 2 cut(s) 111, 206
BstC8I GCNNGC 4 cut(s) 244, 294, 481, 549
BstDEI CTNAG 6 cut(s) 154, 199, 252, 273, 376, 582
BstDSI CCRYGG 1 cut(s) 465
BstEII GGTNACC 1 cut(s) 608
BstF5I GGATG 1 cut(s) 668
BstH2I RGCGCY 1 cut(s) 114
BstHHI GCGC 1 cut(s) 113
BstKTI GATC 4 cut(s) 31, 118, 271, 370
BstMAI GTCTC 1 cut(s) 379
BstMBI GATC 4 cut(s) 28, 115, 268, 367
BstMCI CGRYCG 1 cut(s) 297
BstMWI GCNNNNNNNGC 3 cut(s) 14, 248, 681
BstNI CCWGG 1 cut(s) 592
BstPI GGTNACC 1 cut(s) 608
BstSCI CCNGG 5 cut(s) 170, 208, 246, 296, 590
BstSFI CTRYAG 3 cut(s) 12, 228, 336
BstSLI GKGCMC 2 cut(s) 215, 624
BstV1I GCAGC 1 cut(s) 26
BstX2I RGATCY 2 cut(s) 28, 268
BstYI RGATCY 2 cut(s) 28, 268
BstZI CGGCCG 1 cut(s) 294
Bsu36I CCTNAGG 1 cut(s) 273
BsuRI GGCC 5 cut(s) 137, 179, 246, 296, 684
BtgI CCRYGG 1 cut(s) 465
BtsCI GGATG 1 cut(s) 668
BtsI GCAGTG 2 cut(s) 225, 630
BtsIMutI CAGTG 4 cut(s) 207, 225, 590, 630
BveI ACCTGC 1 cut(s) 526
Cac8I GCNNGC 4 cut(s) 244, 294, 481, 549
CaiI CAGNNNCTG 2 cut(s) 11, 20
CfoI GCGC 1 cut(s) 113
Cfr10I RCCGGY 1 cut(s) 292
Cfr13I GGNCC 4 cut(s) 135, 178, 244, 588
CseI GACGC 1 cut(s) 214
Csp6I GTAC 2 cut(s) 348, 504
CviQI GTAC 2 cut(s) 348, 504
DdeI CTNAG 6 cut(s) 154, 199, 252, 273, 376, 582
DinI GGCGCC 1 cut(s) 112
DpnI GATC 4 cut(s) 30, 117, 270, 369
DpnII GATC 4 cut(s) 28, 115, 268, 367
DriI GACNNNNNGTC 1 cut(s) 460
EaeI YGGCCR 2 cut(s) 294, 682
EagI CGGCCG 1 cut(s) 294
Eam1105I GACNNNNNGTC 1 cut(s) 460
Ecl136II GAGCTC 1 cut(s) 327
EclXI CGGCCG 1 cut(s) 294
Eco24I GRGCYC 1 cut(s) 329
Eco47I GGWCC 1 cut(s) 588
Eco52I CGGCCG 1 cut(s) 294
Eco53kI GAGCTC 1 cut(s) 327
Eco81I CCTNAGG 1 cut(s) 273
Eco88I CYCGRG 1 cut(s) 623
Eco91I GGTNACC 1 cut(s) 608
EcoICRI GAGCTC 1 cut(s) 327
EcoO109I RGGNCCY 1 cut(s) 135
EcoO65I GGTNACC 1 cut(s) 608
EcoRII CCWGG 1 cut(s) 590
EcoT38I GRGCYC 1 cut(s) 329
EgeI GGCGCC 1 cut(s) 112
EheI GGCGCC 1 cut(s) 112
FaiI YATR 3 cut(s) 161, 281, 315
FalI AAGNNNNNCTT 2 cut(s) 393, 425
FauI CCCGC 1 cut(s) 235
Fnu4HI GCNGC 1 cut(s) 15
FokI GGATG 1 cut(s) 655
FriOI GRGCYC 1 cut(s) 329
Fsp4HI GCNGC 1 cut(s) 15
FspBI CTAG 2 cut(s) 447, 501
GlaI GCGC 1 cut(s) 112
GluI GCNGC 1 cut(s) 15
HaeII RGCGCY 1 cut(s) 114
HaeIII GGCC 5 cut(s) 137, 179, 246, 296, 684
HapII CCGG 6 cut(s) 171, 209, 247, 293, 297, 330
HgaI GACGC 1 cut(s) 214
HhaI GCGC 1 cut(s) 113
Hin1I GRCGYC 2 cut(s) 111, 206
Hin6I GCGC 1 cut(s) 111
HinP1I GCGC 1 cut(s) 111
HinfI GANTC 7 cut(s) 46, 52, 58, 82, 197, 575, 626
HpaII CCGG 6 cut(s) 171, 209, 247, 293, 297, 330
HphI GGTGA 1 cut(s) 620
Hpy166II GTNNAC 4 cut(s) 196, 526, 588, 630
Hpy188I TCNGA 6 cut(s) 33, 51, 57, 157, 268, 454
Hpy188III TCNNGA 2 cut(s) 419, 436
Hpy8I GTNNAC 4 cut(s) 196, 526, 588, 630
Hpy99I CGWCG 2 cut(s) 110, 387
HpyAV CCTTC 5 cut(s) 148, 169, 419, 464, 547
HpyCH4III ACNGT 2 cut(s) 191, 661
HpyCH4IV ACGT 1 cut(s) 461
HpyCH4V TGCA 3 cut(s) 14, 230, 653
HpyF10VI GCNNNNNNNGC 3 cut(s) 14, 248, 681
HpyF3I CTNAG 6 cut(s) 154, 199, 252, 273, 376, 582
HpySE526I ACGT 1 cut(s) 461
Hsp92I GRCGYC 2 cut(s) 111, 206
HspAI GCGC 1 cut(s) 111
KasI GGCGCC 1 cut(s) 110
KroI GCCGGC 1 cut(s) 292
KroNI GCCGGC 1 cut(s) 294
Kzo9I GATC 4 cut(s) 28, 115, 268, 367
LmnI GCTCC 2 cut(s) 324, 332
Lsp1109I GCAGC 1 cut(s) 26
MaeI CTAG 2 cut(s) 447, 501
MaeII ACGT 1 cut(s) 461
MaeIII GTNAC 3 cut(s) 202, 223, 608
MalI GATC 4 cut(s) 30, 117, 270, 369
MboI GATC 4 cut(s) 28, 115, 268, 367
MboII GAAGA 2 cut(s) 176, 451
MflI RGATCY 2 cut(s) 28, 268
MhlI GDGCHC 3 cut(s) 215, 329, 624
MlsI TGGCCA 1 cut(s) 684
MluNI TGGCCA 1 cut(s) 684
Mly113I GGCGCC 1 cut(s) 111
MlyI GAGTC 5 cut(s) 46, 52, 191, 569, 635
MmeI TCCRAC 3 cut(s) 74, 80, 246
MnlI CCTC 8 cut(s) 75, 96, 113, 131, 134, 163, 282, 589
Mox20I TGGCCA 1 cut(s) 684
MroNI GCCGGC 1 cut(s) 292
MroXI GAANNNNTTC 2 cut(s) 408, 564
MscI TGGCCA 1 cut(s) 684
Msp20I TGGCCA 1 cut(s) 684
MspA1I CMGCKG 1 cut(s) 341
MspI CCGG 6 cut(s) 171, 209, 247, 293, 297, 330
MspR9I CCNGG 5 cut(s) 172, 210, 248, 298, 592
Mva1269I GAATGC 1 cut(s) 653
MvaI CCWGG 1 cut(s) 592
MwoI GCNNNNNNNGC 3 cut(s) 14, 248, 681
NaeI GCCGGC 1 cut(s) 294
NarI GGCGCC 1 cut(s) 111
NciI CCSGG 4 cut(s) 172, 210, 248, 298
NdeII GATC 4 cut(s) 28, 115, 268, 367
NgoMIV GCCGGC 1 cut(s) 292
NlaIV GGNNCC 5 cut(s) 100, 112, 136, 270, 621
NmuCI GTSAC 3 cut(s) 202, 223, 608
PcsI WCGNNNNNNNCGW 3 cut(s) 102, 111, 212
PctI GAATGC 1 cut(s) 653
PdiI GCCGGC 1 cut(s) 294
PdmI GAANNNNTTC 2 cut(s) 408, 564
PfeI GAWTC 2 cut(s) 46, 82
PflMI CCANNNNNTGG 1 cut(s) 642
PkrI GCNGC 1 cut(s) 16
PleI GAGTC 5 cut(s) 46, 52, 191, 569, 634
PluTI GGCGCC 1 cut(s) 114
PpsI GAGTC 5 cut(s) 46, 52, 191, 569, 634
Psp124BI GAGCTC 1 cut(s) 329
Psp6I CCWGG 1 cut(s) 590
PspEI GGTNACC 1 cut(s) 608
PspGI CCWGG 1 cut(s) 590
PspN4I GGNNCC 5 cut(s) 100, 112, 136, 270, 621
PspPI GGNCC 4 cut(s) 135, 178, 244, 588
PstI CTGCAG 2 cut(s) 16, 232
PstNI CAGNNNCTG 2 cut(s) 11, 20
PsuI RGATCY 2 cut(s) 28, 268
PvuII CAGCTG 1 cut(s) 341
RsaI GTAC 2 cut(s) 349, 505
RsaNI GTAC 2 cut(s) 348, 504
SacI GAGCTC 1 cut(s) 329
SatI GCNGC 1 cut(s) 15
Sau3AI GATC 4 cut(s) 28, 115, 268, 367
Sau96I GGNCC 4 cut(s) 135, 178, 244, 588
SchI GAGTC 5 cut(s) 46, 52, 191, 569, 635
ScrFI CCNGG 5 cut(s) 172, 210, 248, 298, 592
SduI GDGCHC 3 cut(s) 215, 329, 624
SfcI CTRYAG 3 cut(s) 12, 228, 336
SfoI GGCGCC 1 cut(s) 112
SinI GGWCC 1 cut(s) 588
SmlI CTYRAG 1 cut(s) 434
SmoI CTYRAG 1 cut(s) 434
SsiI CCGC 2 cut(s) 242, 322
SspDI GGCGCC 1 cut(s) 110
SspMI CTAG 2 cut(s) 447, 501
SstI GAGCTC 1 cut(s) 329
StyD4I CCNGG 5 cut(s) 170, 208, 246, 296, 590
TaaI ACNGT 2 cut(s) 191, 661
TaiI ACGT 1 cut(s) 464
TaqI TCGA 3 cut(s) 105, 144, 385
TaqII GACCGA 1 cut(s) 381
TatI WGTACW 2 cut(s) 347, 503
TfiI GAWTC 2 cut(s) 46, 82
TscAI CASTG 4 cut(s) 207, 232, 590, 637
TseFI GTSAC 3 cut(s) 202, 223, 608
TseI GCWGC 1 cut(s) 14
Tsp45I GTSAC 3 cut(s) 202, 223, 608
TspDTI ATGAA 1 cut(s) 130
TspGWI ACGGA 2 cut(s) 111, 454
TspRI CASTG 4 cut(s) 207, 232, 590, 637
Van91I CCANNNNNTGG 1 cut(s) 642
VpaK11BI GGWCC 1 cut(s) 588
XcmI CCANNNNNNNNNTGG 1 cut(s) 157
XmnI GAANNNNTTC 2 cut(s) 408, 564
XspI CTAG 2 cut(s) 447, 501
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.