RchiOBHm_Chr7g0209481

Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs)

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
Physical Location & Seq
Forward (+)
26959021 .. 26960719
1699 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ18749

Sequence Viewer

Length: 861 bp
ATGGCTGGTTTGGATTTAGGCTACGTTCACCAGCTCAACAGGCAAGATCACTTGCACCAGCTCCAGAGACCCCAACATCAACAACAAACCCATGATGATACCGAAGACGACGTCAACCAGGGGCAGTACTCAGGCGAAGACCAAGGCCTCGACCTCAGCGGTGGCATCAACACCGGCCCTGGAGACATCGTTGGCCGCAGGCCCCGCGGCCGCCCTCCCGGATCCAAAAACAAGCCCAAGCCGCCAGTCATCATAACAAGAGAGAGTGCAAACACCCTCCGAGCTCATATTCTCGAGGTCGGCAACGGCTGTGACGTCTTCGACTGCGTTGCCACTTACGCGCGGCGTCGCCAGCGCGGGATCTGTATTCTCAGCGGCAGCGGCACTGTCACTAATGTCAGCTTGCGGCAGCCGGCAGCCGCAGGAGCCGTGGTTACCCTCCACGGAAGGTTTGAGATACTTTCCCTTTCTGGATCCTTTCTGCCTCCTCCGGCCCCGCCTGGTGCGACAAGTTTGACTATATTCTTAGCCGGCGGGCAGGGTCAGGTGGTCGGAGGCAGCGTAGTGGGGGAGTTGACCGCAGCCGGACCAGTCATAGTGATTGCCTCGTCCTTTACTAATGTTGCTTACGAGAGGTTGCCCTTGGAGGAGGATGAGCAGCTGCAGATTCAGCCGCAGGCGGGATCTCAAGGCTCCGGAGGAAGCGGTGGAGGTGGCGGAGTGGGAAACAACCCTTTTCCGGACCCATCTTCGGGGCTCCCGTTCTTCAATCTGCCGCTGAATATGCAAAATGTTCAGTTACCAATTGACGGGTGGGCTGGAAACAACAACAACTCTCCAGGAAGTCGTCCGCCATTTTAG

Protein Analysis

286

Amino Acids

29.88

Weight (kDa)

5.77

Isoelectric Point (pI)

50.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 94 - 207 3.2e-23 Plants and Prokaryotes Conserved (PCC) 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

Orthologous Genes (Group: OG0015134)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G17800
fragaria_vesca FvH4_5g21980
malus_domestica MD06G1033400.v1.1 MD16G1275300.v1.1
prunus_persica Prupe.5G037400_v2.0.a1
pyrus_communis pycom06g02760
rosa_chinensis RchiOBHm_Chr7g0209481
rosa_laevigata RLG00000003125
rosa_multiflora Rmu_ssc0000323.1_g000015
rosa_roxburghii Rroxscaffold_3G00249350
rosa_rugosa Rorug07G0113700
rosa_samantha Rh7AG247800 Rh7BG242400 Rh7CG263300 Rh7DG253700
rosa_wichuraiana Rw7G020910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 2 cut(s) 114, 318
AccII CGCG 4 cut(s) 207, 341, 343, 357
AccIII TCCGGA 2 cut(s) 695, 739
AclWI GGATC 6 cut(s) 216, 229, 368, 468, 481, 691
AcoI YGGCCR 2 cut(s) 193, 208
AcyI GRCGYC 3 cut(s) 111, 315, 346
AfaI GTAC 1 cut(s) 128
AfiI CCNNNNNNNGG 5 cut(s) 680, 739, 751, 752, 809
AgsI TTSAA 1 cut(s) 769
AjnI CCWGG 4 cut(s) 117, 178, 499, 838
AluBI AGCT 5 cut(s) 34, 61, 284, 402, 661
AluI AGCT 5 cut(s) 34, 61, 284, 402, 661
Alw21I GWGCWC 1 cut(s) 286
Alw26I GTCTC 2 cut(s) 61, 177
AlwI GGATC 6 cut(s) 216, 229, 368, 468, 481, 691
Ama87I CYCGRG 1 cut(s) 293
Aor13HI TCCGGA 2 cut(s) 695, 739
AoxI GGCC 6 cut(s) 145, 175, 193, 200, 208, 492
ApeKI GCWGC 7 cut(s) 378, 409, 416, 558, 581, 658, 661
ArsI GACNNNNNNTTYG 2 cut(s) 96, 128
AspLEI GCGC 2 cut(s) 343, 357
AspS9I GGNCC 5 cut(s) 176, 201, 493, 587, 742
AsuC2I CCSGG 1 cut(s) 219
AsuHPI GGTGA 1 cut(s) 20
AvaI CYCGRG 1 cut(s) 293
AvaII GGWCC 2 cut(s) 587, 742
BamHI GGATCC 2 cut(s) 221, 473
BanII GRGCYC 2 cut(s) 286, 759
BbsI GAAGAC 3 cut(s) 111, 144, 310
Bbv12I GWGCWC 1 cut(s) 286
BbvCI CCTCAGC 1 cut(s) 155
BbvI GCAGC 7 cut(s) 390, 421, 428, 570, 593, 648, 670
BccI CCATC 1 cut(s) 754
BceAI ACGGC 2 cut(s) 322, 413
BcgI CGANNNNNNTGC 2 cut(s) 311, 345
BciT130I CCWGG 4 cut(s) 119, 180, 501, 840
BcnI CCSGG 1 cut(s) 219
BcoDI GTCTC 2 cut(s) 61, 177
BfmI CTRYAG 1 cut(s) 662
BmcAI AGTACT 1 cut(s) 128
Bme1390I CCNGG 5 cut(s) 119, 180, 219, 501, 840
Bme18I GGWCC 2 cut(s) 587, 742
BmeT110I CYCGRG 1 cut(s) 293
BmgT120I GGNCC 5 cut(s) 176, 201, 493, 587, 742
BmiI GGNNCC 8 cut(s) 203, 223, 427, 475, 495, 694, 744, 758
BmrFI CCNGG 5 cut(s) 119, 180, 219, 501, 840
BmsI GCATC 1 cut(s) 174
BpiI GAAGAC 3 cut(s) 111, 144, 310
BpmI CTGGAG 3 cut(s) 47, 201, 822
Bpu10I CCTNAGC 1 cut(s) 155
BpuEI CTTGAG 1 cut(s) 672
BpuMI CCSGG 1 cut(s) 219
BsaHI GRCGYC 3 cut(s) 111, 315, 346
BsaI GGTCTC 1 cut(s) 61
BsaJI CCNNGG 7 cut(s) 118, 142, 178, 205, 429, 442, 642
BsaWI WCCGGW 2 cut(s) 695, 739
BsaXI ACNNNNNCTCC 6 cut(s) 174, 204, 417, 447, 546, 576
Bsc4I CCNNNNNNNGG 5 cut(s) 680, 739, 751, 752, 809
Bse118I RCCGGY 3 cut(s) 173, 412, 530
Bse1I ACTGG 2 cut(s) 245, 590
BseAI TCCGGA 2 cut(s) 695, 739
BseBI CCWGG 4 cut(s) 119, 180, 501, 840
BseDI CCNNGG 7 cut(s) 118, 142, 178, 205, 429, 442, 642
BseGI GGATG 1 cut(s) 658
BseLI CCNNNNNNNGG 5 cut(s) 680, 739, 751, 752, 809
BseMII CTCAG 3 cut(s) 144, 169, 385
BseNI ACTGG 2 cut(s) 245, 590
BseRI GAGGAG 2 cut(s) 477, 662
BseX3I CGGCCG 1 cut(s) 208
BseXI GCAGC 7 cut(s) 390, 421, 428, 570, 593, 648, 670
Bsh1236I CGCG 4 cut(s) 207, 341, 343, 357
Bsh1285I CGRYCG 1 cut(s) 211
BshFI GGCC 6 cut(s) 147, 177, 195, 202, 210, 494
BsiEI CGRYCG 1 cut(s) 211
BsiHKAI GWGCWC 1 cut(s) 286
BsiHKCI CYCGRG 1 cut(s) 293
BsiSI CCGG 8 cut(s) 174, 219, 413, 491, 531, 585, 696, 740
BslI CCNNNNNNNGG 5 cut(s) 680, 739, 751, 752, 809
BsmAI GTCTC 2 cut(s) 61, 177
BsnI GGCC 6 cut(s) 147, 177, 195, 202, 210, 494
Bso31I GGTCTC 1 cut(s) 61
BsoBI CYCGRG 1 cut(s) 293
Bsp1286I GDGCHC 2 cut(s) 286, 759
Bsp13I TCCGGA 2 cut(s) 695, 739
Bsp143I GATC 5 cut(s) 46, 221, 360, 473, 683
BspANI GGCC 6 cut(s) 147, 177, 195, 202, 210, 494
BspCNI CTCAG 3 cut(s) 143, 168, 384
BspEI TCCGGA 2 cut(s) 695, 739
BspFNI CGCG 4 cut(s) 207, 341, 343, 357
BspLI GGNNCC 8 cut(s) 203, 223, 427, 475, 495, 694, 744, 758
BspMAI CTGCAG 1 cut(s) 666
BspPI GGATC 6 cut(s) 216, 229, 368, 468, 481, 691
BspTNI GGTCTC 1 cut(s) 61
BsrFI RCCGGY 3 cut(s) 173, 412, 530
BsrI ACTGG 2 cut(s) 245, 590
BssAI RCCGGY 3 cut(s) 173, 412, 530
BssECI CCNNGG 7 cut(s) 118, 142, 178, 205, 429, 442, 642
BssMI GATC 5 cut(s) 46, 221, 360, 473, 683
BssNI GRCGYC 3 cut(s) 111, 315, 346
BssT1I CCWWGG 2 cut(s) 142, 642
Bst2UI CCWGG 4 cut(s) 119, 180, 501, 840
Bst4CI ACNGT 1 cut(s) 388
BstACI GRCGYC 3 cut(s) 111, 315, 346
BstC8I GCNNGC 7 cut(s) 200, 353, 404, 414, 532, 536, 678
BstDEI CTNAG 4 cut(s) 130, 155, 371, 526
BstDSI CCRYGG 3 cut(s) 205, 429, 442
BstEII GGTNACC 1 cut(s) 433
BstF5I GGATG 1 cut(s) 658
BstFNI CGCG 4 cut(s) 207, 341, 343, 357
BstHHI GCGC 2 cut(s) 343, 357
BstKTI GATC 5 cut(s) 49, 224, 363, 476, 686
BstMAI GTCTC 2 cut(s) 61, 177
BstMBI GATC 5 cut(s) 46, 221, 360, 473, 683
BstMCI CGRYCG 1 cut(s) 211
BstMWI GCNNNNNNNGC 9 cut(s) 40, 204, 241, 338, 352, 381, 425, 670, 784
BstNI CCWGG 4 cut(s) 119, 180, 501, 840
BstPI GGTNACC 1 cut(s) 433
BstSCI CCNGG 5 cut(s) 117, 178, 217, 499, 838
BstSFI CTRYAG 1 cut(s) 662
BstUI CGCG 4 cut(s) 207, 341, 343, 357
BstV1I GCAGC 7 cut(s) 390, 421, 428, 570, 593, 648, 670
BstV2I GAAGAC 3 cut(s) 111, 144, 310
BstX2I RGATCY 4 cut(s) 221, 360, 473, 683
BstYI RGATCY 4 cut(s) 221, 360, 473, 683
BstZI CGGCCG 1 cut(s) 208
BsuRI GGCC 6 cut(s) 147, 177, 195, 202, 210, 494
BtgI CCRYGG 3 cut(s) 205, 429, 442
BtsCI GGATG 1 cut(s) 658
BtsIMutI CAGTG 1 cut(s) 384
Cac8I GCNNGC 7 cut(s) 200, 353, 404, 414, 532, 536, 678
CciNI GCGGCCGC 1 cut(s) 208
CfoI GCGC 2 cut(s) 343, 357
Cfr10I RCCGGY 3 cut(s) 173, 412, 530
Cfr13I GGNCC 5 cut(s) 176, 201, 493, 587, 742
Cfr42I CCGCGG 1 cut(s) 208
CseI GACGC 1 cut(s) 335
Csp6I GTAC 1 cut(s) 127
CviAII CATG 1 cut(s) 92
CviQI GTAC 1 cut(s) 127
DdeI CTNAG 4 cut(s) 130, 155, 371, 526
DpnI GATC 5 cut(s) 48, 223, 362, 475, 685
DpnII GATC 5 cut(s) 46, 221, 360, 473, 683
EaeI YGGCCR 2 cut(s) 193, 208
EagI CGGCCG 1 cut(s) 208
EciI GGCGGA 2 cut(s) 732, 840
Ecl136II GAGCTC 1 cut(s) 284
EclXI CGGCCG 1 cut(s) 208
Eco130I CCWWGG 2 cut(s) 142, 642
Eco147I AGGCCT 1 cut(s) 147
Eco24I GRGCYC 2 cut(s) 286, 759
Eco31I GGTCTC 1 cut(s) 61
Eco47I GGWCC 2 cut(s) 587, 742
Eco52I CGGCCG 1 cut(s) 208
Eco53kI GAGCTC 1 cut(s) 284
Eco88I CYCGRG 1 cut(s) 293
Eco91I GGTNACC 1 cut(s) 433
EcoICRI GAGCTC 1 cut(s) 284
EcoO109I RGGNCCY 1 cut(s) 201
EcoO65I GGTNACC 1 cut(s) 433
EcoRII CCWGG 4 cut(s) 117, 178, 499, 838
EcoT14I CCWWGG 2 cut(s) 142, 642
EcoT38I GRGCYC 2 cut(s) 286, 759
ErhI CCWWGG 2 cut(s) 142, 642
FaeI CATG 1 cut(s) 95
FaiI YATR 6 cut(s) 93, 254, 288, 521, 596, 785
FatI CATG 1 cut(s) 91
FauI CCCGC 5 cut(s) 212, 350, 504, 527, 673
FokI GGATG 1 cut(s) 665
FriOI GRGCYC 2 cut(s) 286, 759
GlaI GCGC 2 cut(s) 342, 356
GsuI CTGGAG 3 cut(s) 47, 201, 822
HaeIII GGCC 6 cut(s) 147, 177, 195, 202, 210, 494
HapII CCGG 8 cut(s) 174, 219, 413, 491, 531, 585, 696, 740
HgaI GACGC 1 cut(s) 335
HhaI GCGC 2 cut(s) 343, 357
Hin1I GRCGYC 3 cut(s) 111, 315, 346
Hin1II CATG 1 cut(s) 95
Hin6I GCGC 2 cut(s) 341, 355
HinP1I GCGC 2 cut(s) 341, 355
HincII GTYRAC 2 cut(s) 115, 576
HindII GTYRAC 2 cut(s) 115, 576
HinfI GANTC 1 cut(s) 667
HpaII CCGG 8 cut(s) 174, 219, 413, 491, 531, 585, 696, 740
HphI GGTGA 1 cut(s) 20
Hpy166II GTNNAC 3 cut(s) 28, 115, 576
Hpy188I TCNGA 2 cut(s) 281, 554
Hpy188III TCNNGA 5 cut(s) 64, 293, 471, 696, 740
Hpy8I GTNNAC 3 cut(s) 28, 115, 576
Hpy99I CGWCG 2 cut(s) 113, 351
HpyAV CCTTC 1 cut(s) 441
HpyCH4III ACNGT 1 cut(s) 388
HpyCH4IV ACGT 3 cut(s) 24, 111, 315
HpyCH4V TGCA 4 cut(s) 55, 269, 664, 787
HpyF10VI GCNNNNNNNGC 9 cut(s) 40, 204, 241, 338, 352, 381, 425, 670, 784
HpyF3I CTNAG 4 cut(s) 130, 155, 371, 526
HpySE526I ACGT 3 cut(s) 24, 111, 315
Hsp92I GRCGYC 3 cut(s) 111, 315, 346
Hsp92II CATG 1 cut(s) 95
HspAI GCGC 2 cut(s) 341, 355
Kpn2I TCCGGA 2 cut(s) 695, 739
KroI GCCGGC 2 cut(s) 412, 530
KroNI GCCGGC 2 cut(s) 414, 532
KspI CCGCGG 1 cut(s) 208
Kzo9I GATC 5 cut(s) 46, 221, 360, 473, 683
LmnI GCTCC 4 cut(s) 66, 425, 698, 762
Lsp1109I GCAGC 7 cut(s) 390, 421, 428, 570, 593, 648, 670
LweI GCATC 1 cut(s) 174
MaeII ACGT 3 cut(s) 24, 111, 315
MaeIII GTNAC 4 cut(s) 311, 388, 433, 798
MalI GATC 5 cut(s) 48, 223, 362, 475, 685
MboI GATC 5 cut(s) 46, 221, 360, 473, 683
MboII GAAGA 5 cut(s) 116, 149, 310, 741, 757
MfeI CAATTG 1 cut(s) 804
MflI RGATCY 4 cut(s) 221, 360, 473, 683
MhlI GDGCHC 2 cut(s) 286, 759
MluCI AATT 1 cut(s) 804
MmeI TCCRAC 1 cut(s) 532
MroI TCCGGA 2 cut(s) 695, 739
MroNI GCCGGC 2 cut(s) 412, 530
MspA1I CMGCKG 6 cut(s) 159, 207, 375, 381, 661, 778
MspI CCGG 8 cut(s) 174, 219, 413, 491, 531, 585, 696, 740
MspR9I CCNGG 5 cut(s) 119, 180, 219, 501, 840
MunI CAATTG 1 cut(s) 804
MvaI CCWGG 4 cut(s) 119, 180, 501, 840
MvnI CGCG 4 cut(s) 207, 341, 343, 357
MwoI GCNNNNNNNGC 9 cut(s) 40, 204, 241, 338, 352, 381, 425, 670, 784
NaeI GCCGGC 2 cut(s) 414, 532
NciI CCSGG 1 cut(s) 219
NdeII GATC 5 cut(s) 46, 221, 360, 473, 683
NgoMIV GCCGGC 2 cut(s) 412, 530
NlaIII CATG 1 cut(s) 95
NlaIV GGNNCC 8 cut(s) 203, 223, 427, 475, 495, 694, 744, 758
NmuCI GTSAC 2 cut(s) 311, 388
NotI GCGGCCGC 1 cut(s) 208
PaeR7I CTCGAG 1 cut(s) 293
PceI AGGCCT 1 cut(s) 147
PcsI WCGNNNNNNNCGW 3 cut(s) 312, 558, 758
PdiI GCCGGC 2 cut(s) 414, 532
PfeI GAWTC 1 cut(s) 667
PflFI GACNNNGTC 1 cut(s) 110
PfoI TCCNGGA 2 cut(s) 217, 838
Psp124BI GAGCTC 1 cut(s) 286
Psp6I CCWGG 4 cut(s) 117, 178, 499, 838
PspEI GGTNACC 1 cut(s) 433
PspGI CCWGG 4 cut(s) 117, 178, 499, 838
PspN4I GGNNCC 8 cut(s) 203, 223, 427, 475, 495, 694, 744, 758
PspPI GGNCC 5 cut(s) 176, 201, 493, 587, 742
PstI CTGCAG 1 cut(s) 666
PsuI RGATCY 4 cut(s) 221, 360, 473, 683
PsyI GACNNNGTC 1 cut(s) 110
PvuII CAGCTG 1 cut(s) 661
RsaI GTAC 1 cut(s) 128
RsaNI GTAC 1 cut(s) 127
SacI GAGCTC 1 cut(s) 286
SacII CCGCGG 1 cut(s) 208
Sau3AI GATC 5 cut(s) 46, 221, 360, 473, 683
Sau96I GGNCC 5 cut(s) 176, 201, 493, 587, 742
ScaI AGTACT 1 cut(s) 128
ScrFI CCNGG 5 cut(s) 119, 180, 219, 501, 840
SduI GDGCHC 2 cut(s) 286, 759
SfaNI GCATC 1 cut(s) 174
SfcI CTRYAG 1 cut(s) 662
Sfr274I CTCGAG 1 cut(s) 293
Sfr303I CCGCGG 1 cut(s) 208
SgrBI CCGCGG 1 cut(s) 208
SinI GGWCC 2 cut(s) 587, 742
SlaI CTCGAG 1 cut(s) 293
SmlI CTYRAG 2 cut(s) 293, 687
SmoI CTYRAG 2 cut(s) 293, 687
Sse9I AATT 1 cut(s) 804
SseBI AGGCCT 1 cut(s) 147
SstI GAGCTC 1 cut(s) 286
StuI AGGCCT 1 cut(s) 147
StyD4I CCNGG 5 cut(s) 117, 178, 217, 499, 838
StyI CCWWGG 2 cut(s) 142, 642
TaaI ACNGT 1 cut(s) 388
TaiI ACGT 3 cut(s) 27, 114, 318
TaqI TCGA 3 cut(s) 150, 294, 321
TasI AATT 1 cut(s) 804
TatI WGTACW 1 cut(s) 126
TfiI GAWTC 1 cut(s) 667
TscAI CASTG 1 cut(s) 391
TseFI GTSAC 2 cut(s) 311, 388
TseI GCWGC 7 cut(s) 378, 409, 416, 558, 581, 658, 661
Tsp45I GTSAC 2 cut(s) 311, 388
TspGWI ACGGA 1 cut(s) 459
TspRI CASTG 1 cut(s) 391
Tth111I GACNNNGTC 1 cut(s) 110
VpaK11BI GGWCC 2 cut(s) 587, 742
XcmI CCANNNNNNNNNTGG 1 cut(s) 810
XhoI CTCGAG 1 cut(s) 293
ZraI GACGTC 2 cut(s) 112, 316
ZrmI AGTACT 1 cut(s) 128
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.