Rh5DG453200

methyl-CpG-binding domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0014187
Physical Location & Seq
Forward (+)
72277497 .. 72281438
3942 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG453200.1

Sequence Viewer

Length: 711 bp
ATGTCAGCCCCCGAAGCCTCTGGTAAAGATCTGAACCCGAACCCGAATCCGAATCCGACTCCGAGTCCACCTCATCAACACCACCTGAATCCTCCACCTGACGGAACCTTCGACGGCGCCGATCCCCTCCTCCAATCGGGGGCCTTCATCGACCCCACCACCACCCCCACCTCAGATATGGAAGAAACCGGGAAGGCCCAACCGAACGGTGTGGACTCAGTGACGCCGGGCACGAGTAATGTCACTGCAGACGGGTCGGCGGGCCGGGCTAAGGCGAAAGGGTCGGATCCTCAGGCTATGGATTGGTTGCCGGCCGGGTGGAGAGTGGAGTATAAAGTGCGGAGCTCCGGTGCTACAGCTGGAAGTACAGATAGGTATTACCACGATCCAGTCTCAGGTCGTCGATTTCGGTCAAAGAAAGAAGTCCTTCACTTTCTGGAAACAGGAACGCTCAAGAAGAACGCTAGTTCTGACAAAACGTCCGTGGAAGGTTCTGCGAGCAAAAAGCAAAAGAAGTCTAGTACAAAGCCCAGACCTGCTGTGAACTTTGATTTTTTTGACGTGCCTGCGAAGGTGGAATGGGTTCTCACAGACTCCTCTCAGTGGACCTGGACACCCTTTATCGGTGACCAAAAGGTGCCCGAGTCCACTGCCAAAGAATGGGCAACTGCATTCACAGTTTTCACATCCAGCAATAGCCACACTCAATGA

Protein Analysis

236

Amino Acids

25.42

Weight (kDa)

6.6

Isoelectric Point (pI)

34.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MBD PF01429 101 - 151 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) 544
AccB1I GGYRCC 2 cut(s) 116, 637
AccB7I CCANNNNNTGG 1 cut(s) 660
AciI CCGC 2 cut(s) 260, 340
AclWI GGATC 4 cut(s) 116, 281, 294, 380
AcoI YGGCCR 1 cut(s) 312
AcyI GRCGYC 2 cut(s) 117, 224
AfaI GTAC 2 cut(s) 367, 523
AfiI CCNNNNNNNGG 8 cut(s) 101, 136, 139, 271, 395, 603, 623, 660
AhdI GACNNNNNGTC 2 cut(s) 63, 478
AjiI CACGTC 1 cut(s) 562
AjnI CCWGG 1 cut(s) 608
AluBI AGCT 2 cut(s) 345, 359
AluI AGCT 2 cut(s) 345, 359
Alw21I GWGCWC 1 cut(s) 347
Alw26I GTCTC 1 cut(s) 397
AlwI GGATC 4 cut(s) 116, 281, 294, 380
Ama87I CYCGRG 1 cut(s) 641
AoxI GGCC 4 cut(s) 141, 195, 262, 312
ArsI GACNNNNNNTTYG 2 cut(s) 92, 124
Asp700I GAANNNNTTC 2 cut(s) 426, 582
AspLEI GCGC 1 cut(s) 119
AspS9I GGNCC 4 cut(s) 141, 196, 262, 606
AsuC2I CCSGG 4 cut(s) 190, 228, 266, 316
AsuHPI GGTGA 1 cut(s) 638
AvaI CYCGRG 1 cut(s) 641
AvaII GGWCC 1 cut(s) 606
AxyI CCTNAGG 1 cut(s) 291
BaeGI GKGCMC 2 cut(s) 233, 642
BamHI GGATCC 1 cut(s) 286
BanI GGYRCC 2 cut(s) 116, 637
BanII GRGCYC 1 cut(s) 347
BauI CACGAG 1 cut(s) 232
Bbv12I GWGCWC 1 cut(s) 347
BceAI ACGGC 1 cut(s) 130
BcgI CGANNNNNNTGC 4 cut(s) 237, 271, 632, 666
BciT130I CCWGG 1 cut(s) 610
BcnI CCSGG 4 cut(s) 190, 228, 266, 316
BcoDI GTCTC 1 cut(s) 397
BfaI CTAG 2 cut(s) 465, 519
BfmI CTRYAG 2 cut(s) 246, 354
BfoI RGCGCY 1 cut(s) 120
BfuAI ACCTGC 1 cut(s) 544
BglII AGATCT 1 cut(s) 28
Bme1390I CCNGG 5 cut(s) 190, 228, 266, 316, 610
Bme18I GGWCC 1 cut(s) 606
BmeRI GACNNNNNGTC 2 cut(s) 63, 478
BmeT110I CYCGRG 1 cut(s) 641
BmgBI CACGTC 1 cut(s) 562
BmgT120I GGNCC 4 cut(s) 141, 196, 262, 606
BmiI GGNNCC 5 cut(s) 106, 118, 142, 288, 639
BmrFI CCNGG 5 cut(s) 190, 228, 266, 316, 610
BplI GAGNNNNNCTC 2 cut(s) 55, 87
Bpu10I CCTNAGC 1 cut(s) 270
BpuEI CTTGAG 1 cut(s) 437
BpuMI CCSGG 4 cut(s) 190, 228, 266, 316
BsaHI GRCGYC 2 cut(s) 117, 224
BsaJI CCNNGG 1 cut(s) 483
BsaWI WCCGGW 1 cut(s) 347
BsaXI ACNNNNNCTCC 2 cut(s) 334, 364
Bsc4I CCNNNNNNNGG 8 cut(s) 101, 136, 139, 271, 395, 603, 623, 660
Bse118I RCCGGY 1 cut(s) 310
Bse1I ACTGG 1 cut(s) 389
Bse21I CCTNAGG 1 cut(s) 291
BseBI CCWGG 1 cut(s) 610
BseDI CCNNGG 1 cut(s) 483
BseGI GGATG 1 cut(s) 686
BseLI CCNNNNNNNGG 8 cut(s) 101, 136, 139, 271, 395, 603, 623, 660
BseMII CTCAG 5 cut(s) 186, 231, 305, 408, 614
BseNI ACTGG 1 cut(s) 389
BseRI GAGGAG 2 cut(s) 119, 586
BseSI GKGCMC 2 cut(s) 233, 642
BseX3I CGGCCG 1 cut(s) 312
Bsh1285I CGRYCG 1 cut(s) 315
BshFI GGCC 4 cut(s) 143, 197, 264, 314
BshNI GGYRCC 2 cut(s) 116, 637
BsiEI CGRYCG 1 cut(s) 315
BsiHKAI GWGCWC 1 cut(s) 347
BsiHKCI CYCGRG 1 cut(s) 641
BsiSI CCGG 6 cut(s) 189, 227, 265, 311, 315, 348
BslI CCNNNNNNNGG 8 cut(s) 101, 136, 139, 271, 395, 603, 623, 660
BsmAI GTCTC 1 cut(s) 397
BsmI GAATGC 1 cut(s) 671
BsnI GGCC 4 cut(s) 143, 197, 264, 314
BsoBI CYCGRG 1 cut(s) 641
Bsp1286I GDGCHC 3 cut(s) 233, 347, 642
Bsp143I GATC 4 cut(s) 28, 121, 286, 385
BspACI CCGC 2 cut(s) 260, 340
BspANI GGCC 4 cut(s) 143, 197, 264, 314
BspCNI CTCAG 5 cut(s) 185, 230, 304, 407, 613
BspLI GGNNCC 5 cut(s) 106, 118, 142, 288, 639
BspMAI CTGCAG 1 cut(s) 250
BspMI ACCTGC 1 cut(s) 544
BspPI GGATC 4 cut(s) 116, 281, 294, 380
BspT107I GGYRCC 2 cut(s) 116, 637
BsrFI RCCGGY 1 cut(s) 310
BsrI ACTGG 1 cut(s) 389
BssAI RCCGGY 1 cut(s) 310
BssECI CCNNGG 1 cut(s) 483
BssMI GATC 4 cut(s) 28, 121, 286, 385
BssNI GRCGYC 2 cut(s) 117, 224
BssSI CACGAG 1 cut(s) 232
Bst2BI CACGAG 1 cut(s) 232
Bst2UI CCWGG 1 cut(s) 610
Bst4CI ACNGT 2 cut(s) 209, 679
BstACI GRCGYC 2 cut(s) 117, 224
BstC8I GCNNGC 4 cut(s) 262, 312, 499, 567
BstDEI CTNAG 6 cut(s) 172, 217, 270, 291, 394, 600
BstDSI CCRYGG 1 cut(s) 483
BstEII GGTNACC 1 cut(s) 626
BstF5I GGATG 1 cut(s) 686
BstH2I RGCGCY 1 cut(s) 120
BstHHI GCGC 1 cut(s) 119
BstKTI GATC 4 cut(s) 31, 124, 289, 388
BstMAI GTCTC 1 cut(s) 397
BstMBI GATC 4 cut(s) 28, 121, 286, 385
BstMCI CGRYCG 1 cut(s) 315
BstMWI GCNNNNNNNGC 2 cut(s) 14, 266
BstNI CCWGG 1 cut(s) 610
BstPI GGTNACC 1 cut(s) 626
BstSCI CCNGG 5 cut(s) 188, 226, 264, 314, 608
BstSFI CTRYAG 2 cut(s) 246, 354
BstSLI GKGCMC 2 cut(s) 233, 642
BstX2I RGATCY 2 cut(s) 28, 286
BstYI RGATCY 2 cut(s) 28, 286
BstZI CGGCCG 1 cut(s) 312
Bsu36I CCTNAGG 1 cut(s) 291
BsuRI GGCC 4 cut(s) 143, 197, 264, 314
BtgI CCRYGG 1 cut(s) 483
BtrI CACGTC 1 cut(s) 562
BtsCI GGATG 1 cut(s) 686
BtsI GCAGTG 2 cut(s) 243, 648
BtsIMutI CAGTG 4 cut(s) 225, 243, 608, 648
BveI ACCTGC 1 cut(s) 544
Cac8I GCNNGC 4 cut(s) 262, 312, 499, 567
CfoI GCGC 1 cut(s) 119
Cfr10I RCCGGY 1 cut(s) 310
Cfr13I GGNCC 4 cut(s) 141, 196, 262, 606
CseI GACGC 1 cut(s) 232
Csp6I GTAC 2 cut(s) 366, 522
CviQI GTAC 2 cut(s) 366, 522
DdeI CTNAG 6 cut(s) 172, 217, 270, 291, 394, 600
DinI GGCGCC 1 cut(s) 118
DpnI GATC 4 cut(s) 30, 123, 288, 387
DpnII GATC 4 cut(s) 28, 121, 286, 385
DriI GACNNNNNGTC 2 cut(s) 63, 478
EaeI YGGCCR 1 cut(s) 312
EagI CGGCCG 1 cut(s) 312
Eam1105I GACNNNNNGTC 2 cut(s) 63, 478
Ecl136II GAGCTC 1 cut(s) 345
EclXI CGGCCG 1 cut(s) 312
Eco24I GRGCYC 1 cut(s) 347
Eco47I GGWCC 1 cut(s) 606
Eco52I CGGCCG 1 cut(s) 312
Eco53kI GAGCTC 1 cut(s) 345
Eco81I CCTNAGG 1 cut(s) 291
Eco88I CYCGRG 1 cut(s) 641
Eco91I GGTNACC 1 cut(s) 626
EcoICRI GAGCTC 1 cut(s) 345
EcoO109I RGGNCCY 1 cut(s) 141
EcoO65I GGTNACC 1 cut(s) 626
EcoRII CCWGG 1 cut(s) 608
EcoT38I GRGCYC 1 cut(s) 347
EgeI GGCGCC 1 cut(s) 118
EheI GGCGCC 1 cut(s) 118
FaiI YATR 3 cut(s) 179, 299, 333
FalI AAGNNNNNCTT 2 cut(s) 411, 443
FauI CCCGC 1 cut(s) 253
FokI GGATG 1 cut(s) 673
FriOI GRGCYC 1 cut(s) 347
FspBI CTAG 2 cut(s) 465, 519
GlaI GCGC 1 cut(s) 118
HaeII RGCGCY 1 cut(s) 120
HaeIII GGCC 4 cut(s) 143, 197, 264, 314
HapII CCGG 6 cut(s) 189, 227, 265, 311, 315, 348
HgaI GACGC 1 cut(s) 232
HhaI GCGC 1 cut(s) 119
Hin1I GRCGYC 2 cut(s) 117, 224
Hin6I GCGC 1 cut(s) 117
HinP1I GCGC 1 cut(s) 117
HinfI GANTC 8 cut(s) 46, 52, 58, 64, 88, 215, 593, 644
HpaII CCGG 6 cut(s) 189, 227, 265, 311, 315, 348
HphI GGTGA 1 cut(s) 638
Hpy166II GTNNAC 5 cut(s) 68, 214, 544, 606, 648
Hpy188I TCNGA 7 cut(s) 33, 51, 57, 63, 175, 286, 472
Hpy188III TCNNGA 2 cut(s) 437, 454
Hpy8I GTNNAC 5 cut(s) 68, 214, 544, 606, 648
Hpy99I CGWCG 2 cut(s) 116, 405
HpyAV CCTTC 6 cut(s) 118, 154, 187, 437, 482, 565
HpyCH4III ACNGT 2 cut(s) 209, 679
HpyCH4IV ACGT 2 cut(s) 479, 561
HpyCH4V TGCA 2 cut(s) 248, 671
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 266
HpyF3I CTNAG 6 cut(s) 172, 217, 270, 291, 394, 600
HpySE526I ACGT 2 cut(s) 479, 561
Hsp92I GRCGYC 2 cut(s) 117, 224
HspAI GCGC 1 cut(s) 117
KasI GGCGCC 1 cut(s) 116
KroI GCCGGC 1 cut(s) 310
KroNI GCCGGC 1 cut(s) 312
Kzo9I GATC 4 cut(s) 28, 121, 286, 385
LmnI GCTCC 2 cut(s) 342, 350
MaeI CTAG 2 cut(s) 465, 519
MaeII ACGT 2 cut(s) 479, 561
MaeIII GTNAC 3 cut(s) 220, 241, 626
MalI GATC 4 cut(s) 30, 123, 288, 387
MboI GATC 4 cut(s) 28, 121, 286, 385
MboII GAAGA 2 cut(s) 194, 469
MflI RGATCY 2 cut(s) 28, 286
MhlI GDGCHC 3 cut(s) 233, 347, 642
Mly113I GGCGCC 1 cut(s) 117
MlyI GAGTC 5 cut(s) 52, 73, 209, 587, 653
MmeI TCCRAC 2 cut(s) 80, 264
MnlI CCTC 8 cut(s) 28, 81, 102, 137, 140, 181, 300, 607
MroNI GCCGGC 1 cut(s) 310
MroXI GAANNNNTTC 2 cut(s) 426, 582
MspA1I CMGCKG 1 cut(s) 359
MspI CCGG 6 cut(s) 189, 227, 265, 311, 315, 348
MspR9I CCNGG 5 cut(s) 190, 228, 266, 316, 610
Mva1269I GAATGC 1 cut(s) 671
MvaI CCWGG 1 cut(s) 610
MwoI GCNNNNNNNGC 2 cut(s) 14, 266
NaeI GCCGGC 1 cut(s) 312
NarI GGCGCC 1 cut(s) 117
NciI CCSGG 4 cut(s) 190, 228, 266, 316
NdeII GATC 4 cut(s) 28, 121, 286, 385
NgoMIV GCCGGC 1 cut(s) 310
NlaIV GGNNCC 5 cut(s) 106, 118, 142, 288, 639
NmuCI GTSAC 3 cut(s) 220, 241, 626
PcsI WCGNNNNNNNCGW 3 cut(s) 108, 117, 230
PctI GAATGC 1 cut(s) 671
PdiI GCCGGC 1 cut(s) 312
PdmI GAANNNNTTC 2 cut(s) 426, 582
PfeI GAWTC 3 cut(s) 46, 52, 88
PflMI CCANNNNNTGG 1 cut(s) 660
PleI GAGTC 5 cut(s) 52, 72, 209, 587, 652
PluTI GGCGCC 1 cut(s) 120
PpsI GAGTC 5 cut(s) 52, 72, 209, 587, 652
Psp124BI GAGCTC 1 cut(s) 347
Psp6I CCWGG 1 cut(s) 608
PspEI GGTNACC 1 cut(s) 626
PspGI CCWGG 1 cut(s) 608
PspN4I GGNNCC 5 cut(s) 106, 118, 142, 288, 639
PspPI GGNCC 4 cut(s) 141, 196, 262, 606
PstI CTGCAG 1 cut(s) 250
PsuI RGATCY 2 cut(s) 28, 286
PvuII CAGCTG 1 cut(s) 359
RsaI GTAC 2 cut(s) 367, 523
RsaNI GTAC 2 cut(s) 366, 522
SacI GAGCTC 1 cut(s) 347
Sau3AI GATC 4 cut(s) 28, 121, 286, 385
Sau96I GGNCC 4 cut(s) 141, 196, 262, 606
SchI GAGTC 5 cut(s) 52, 73, 209, 587, 653
ScrFI CCNGG 5 cut(s) 190, 228, 266, 316, 610
SduI GDGCHC 3 cut(s) 233, 347, 642
SfcI CTRYAG 2 cut(s) 246, 354
SfoI GGCGCC 1 cut(s) 118
SinI GGWCC 1 cut(s) 606
SmlI CTYRAG 1 cut(s) 452
SmoI CTYRAG 1 cut(s) 452
SsiI CCGC 2 cut(s) 260, 340
SspDI GGCGCC 1 cut(s) 116
SspMI CTAG 2 cut(s) 465, 519
SstI GAGCTC 1 cut(s) 347
StyD4I CCNGG 5 cut(s) 188, 226, 264, 314, 608
TaaI ACNGT 2 cut(s) 209, 679
TaiI ACGT 2 cut(s) 482, 564
TaqI TCGA 3 cut(s) 111, 150, 403
TaqII GACCGA 1 cut(s) 399
TatI WGTACW 2 cut(s) 365, 521
TfiI GAWTC 3 cut(s) 46, 52, 88
TscAI CASTG 4 cut(s) 225, 250, 608, 655
TseFI GTSAC 3 cut(s) 220, 241, 626
Tsp45I GTSAC 3 cut(s) 220, 241, 626
TspDTI ATGAA 1 cut(s) 136
TspGWI ACGGA 2 cut(s) 117, 472
TspRI CASTG 4 cut(s) 225, 250, 608, 655
Van91I CCANNNNNTGG 1 cut(s) 660
VpaK11BI GGWCC 1 cut(s) 606
XcmI CCANNNNNNNNNTGG 1 cut(s) 175
XmnI GAANNNNTTC 2 cut(s) 426, 582
XspI CTAG 2 cut(s) 465, 519
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.