RchiOBHm_Chr3g0450081

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
3
Physical Location & Seq
Forward (+)
1731831 .. 1732751
921 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ41742

Sequence Viewer

Length: 921 bp
ATGGCATGGTGGGCTGGGCAGGTGGGTTTACCCGGAGGACTGAAACACGAAGGCTCAGCTGGCAGCAGCACTCCGATGAAGTTAATGAAACCAGATCTGGGAATCTCCATGAACAACAGTTCCACTAGCCACCTCCTTGGTGGTGGAGGTGGAGGTGGATCAGGATCAGCTGGCGACGATGATGATGAAAGGGACAACGTCAGCGGCGACGACCCCAAGGAGGGCGCCGTCGAAGTCTCAGGCAGCAACAGGCGCCCGAGAGGACGCCCTCCGGGGTCTAAAAACAAGCCGAAACCACCCATCTTCGTGACAAGGGATAGCCCCAACGCCCTCCGAAGCCACGTCATGGAGATCGCCAACGGCGCTGACATAGCTGAGAGCGTGGCGCAGTTCGCTAGGGCGAGGCAGAGAGGCGTCTGCGTGATGAGTGGGAGCGGGACCGTCACCAACGTCACGCTCCGGCAGCCTTCAGCTCCCGGAGCGGTCATGGCCCTCCATGGAAGGTTCGAGATTCTGTCCCTGACCGGAGCGTTTTTGCCCGGGCCAGCACCACCAGGGGCGACCGGAATGACGATATACTTGGCGGGCGGGCAGGGGCAGGTCGTCGGAGGAAGCGTGGTTGGCCCTCTTATAGCTTCTGGACCGGTCATGGTAATAGCAGCCACTTTCTCTAATGCTACTTATGAAAGACTGCCCTTGGATCAAGAGGAGGATGATCAGCCACCTGCCCCGAATTCAGGGCAGACGGCTGGAGGTGGCGGATCTCCACCCGGTATTGGGGGGAGTTTGGGCGATGCGAATTCGTCTATGCCGCCCGGGGTTTACAATTTACAGCCTAGTTTGGTTCCGAACGGTGGAGGGCAGTTGAACCATGAGGCATATTCAAATTGGGCTCATGGTGGAGGTAGACCTCCATTTTAA

Protein Analysis

306

Amino Acids

30.76

Weight (kDa)

5.85

Isoelectric Point (pI)

42.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 112 - 224 2.9e-24 Plants and Prokaryotes Conserved (PCC) domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 2 cut(s) 10, 733
Acc36I ACCTGC 3 cut(s) 10, 589, 733
AccB1I GGYRCC 2 cut(s) 224, 252
AccB7I CCANNNNNTGG 1 cut(s) 346
AccBSI CCGCTC 2 cut(s) 435, 482
AccI GTMKAC 1 cut(s) 907
AciI CCGC 7 cut(s) 204, 435, 482, 584, 588, 759, 812
AclWI GGATC 4 cut(s) 166, 172, 708, 769
AcsI RAATTY 2 cut(s) 733, 799
AcuI CTGAAG 1 cut(s) 453
AcyI GRCGYC 4 cut(s) 225, 253, 265, 414
AfiI CCNNNNNNNGG 8 cut(s) 98, 220, 221, 346, 737, 776, 777, 854
AgeI ACCGGT 1 cut(s) 643
AgsI TTSAA 2 cut(s) 868, 885
AjiI CACGTC 1 cut(s) 343
AjnI CCWGG 1 cut(s) 553
AloI GAACNNNNNNTCC 2 cut(s) 104, 136
AluBI AGCT 5 cut(s) 59, 170, 374, 473, 635
AluI AGCT 5 cut(s) 59, 170, 374, 473, 635
Alw26I GTCTC 1 cut(s) 241
AlwI GGATC 4 cut(s) 166, 172, 708, 769
Ama87I CYCGRG 3 cut(s) 256, 539, 815
AoxI GGCC 3 cut(s) 489, 542, 622
ApeKI GCWGC 5 cut(s) 63, 66, 243, 463, 659
ApoI RAATTY 2 cut(s) 733, 799
AsiGI ACCGGT 1 cut(s) 643
AspLEI GCGC 4 cut(s) 227, 255, 365, 388
AspS9I GGNCC 5 cut(s) 438, 490, 542, 623, 641
AsuC2I CCSGG 8 cut(s) 33, 273, 477, 540, 541, 771, 816, 817
AsuHPI GGTGA 1 cut(s) 436
AvaI CYCGRG 3 cut(s) 256, 539, 815
AvaII GGWCC 2 cut(s) 438, 641
BanI GGYRCC 2 cut(s) 224, 252
BanII GRGCYC 1 cut(s) 895
BbvI GCAGC 5 cut(s) 75, 78, 255, 475, 671
BccI CCATC 1 cut(s) 308
BceAI ACGGC 3 cut(s) 212, 376, 762
BciT130I CCWGG 1 cut(s) 555
BclI TGATCA 1 cut(s) 715
BcnI CCSGG 8 cut(s) 33, 273, 477, 540, 541, 771, 816, 817
BcoDI GTCTC 1 cut(s) 241
BfaI CTAG 3 cut(s) 126, 396, 837
BfoI RGCGCY 3 cut(s) 228, 256, 366
BfuAI ACCTGC 3 cut(s) 10, 589, 733
BglII AGATCT 1 cut(s) 94
BisI GCNGC 7 cut(s) 64, 67, 205, 244, 464, 660, 812
BlpI GCTNAGC 1 cut(s) 55
BlsI GCNGC 7 cut(s) 65, 68, 206, 245, 465, 661, 813
Bme1390I CCNGG 9 cut(s) 33, 273, 477, 540, 541, 555, 771, 816, 817
Bme18I GGWCC 2 cut(s) 438, 641
BmeT110I CYCGRG 3 cut(s) 256, 539, 815
BmgBI CACGTC 1 cut(s) 343
BmgT120I GGNCC 5 cut(s) 438, 490, 542, 623, 641
BmiI GGNNCC 4 cut(s) 226, 254, 439, 846
BmrFI CCNGG 9 cut(s) 33, 273, 477, 540, 541, 555, 771, 816, 817
BmsI GCATC 1 cut(s) 784
BpmI CTGGAG 1 cut(s) 771
Bpu1102I GCTNAGC 1 cut(s) 55
BpuMI CCSGG 8 cut(s) 33, 273, 477, 540, 541, 771, 816, 817
BsaBI GATNNNNATC 1 cut(s) 163
BsaHI GRCGYC 4 cut(s) 225, 253, 265, 414
BsaJI CCNNGG 9 cut(s) 136, 216, 272, 496, 539, 554, 696, 815, 816
BsaWI WCCGGW 3 cut(s) 524, 563, 643
BsaXI ACNNNNNCTCC 2 cut(s) 600, 630
Bsc4I CCNNNNNNNGG 8 cut(s) 98, 220, 221, 346, 737, 776, 777, 854
Bse118I RCCGGY 1 cut(s) 643
Bse8I GATNNNNATC 1 cut(s) 163
BseBI CCWGG 1 cut(s) 555
BseDI CCNNGG 9 cut(s) 136, 216, 272, 496, 539, 554, 696, 815, 816
BseGI GGATG 1 cut(s) 718
BseJI GATNNNNATC 1 cut(s) 163
BseLI CCNNNNNNNGG 8 cut(s) 98, 220, 221, 346, 737, 776, 777, 854
BseMII CTCAG 3 cut(s) 69, 252, 366
BseRI GAGGAG 1 cut(s) 722
BseXI GCAGC 5 cut(s) 75, 78, 255, 475, 671
BseYI CCCAGC 1 cut(s) 14
Bsh1285I CGRYCG 1 cut(s) 564
BshFI GGCC 3 cut(s) 491, 544, 624
BshNI GGYRCC 2 cut(s) 224, 252
BshTI ACCGGT 1 cut(s) 643
BsiEI CGRYCG 1 cut(s) 564
BsiHKCI CYCGRG 3 cut(s) 256, 539, 815
BslFI GGGAC 3 cut(s) 206, 451, 502
BslI CCNNNNNNNGG 8 cut(s) 98, 220, 221, 346, 737, 776, 777, 854
BsmAI GTCTC 1 cut(s) 241
BsmFI GGGAC 3 cut(s) 206, 451, 502
BsnI GGCC 3 cut(s) 491, 544, 624
BsoBI CYCGRG 3 cut(s) 256, 539, 815
Bsp1286I GDGCHC 1 cut(s) 895
Bsp143I GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
Bsp1720I GCTNAGC 1 cut(s) 55
Bsp19I CCATGG 1 cut(s) 496
BspACI CCGC 7 cut(s) 204, 435, 482, 584, 588, 759, 812
BspANI GGCC 3 cut(s) 491, 544, 624
BspCNI CTCAG 3 cut(s) 68, 251, 367
BspLI GGNNCC 4 cut(s) 226, 254, 439, 846
BspMI ACCTGC 3 cut(s) 10, 589, 733
BspPI GGATC 4 cut(s) 166, 172, 708, 769
BspT107I GGYRCC 2 cut(s) 224, 252
BsrBI CCGCTC 2 cut(s) 435, 482
BsrFI RCCGGY 1 cut(s) 643
BssAI RCCGGY 1 cut(s) 643
BssECI CCNNGG 9 cut(s) 136, 216, 272, 496, 539, 554, 696, 815, 816
BssMI GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
BssNI GRCGYC 4 cut(s) 225, 253, 265, 414
BssT1I CCWWGG 4 cut(s) 136, 216, 496, 696
Bst2UI CCWGG 1 cut(s) 555
Bst4CI ACNGT 3 cut(s) 119, 442, 854
BstACI GRCGYC 4 cut(s) 225, 253, 265, 414
BstC8I GCNNGC 5 cut(s) 61, 172, 546, 586, 590
BstDEI CTNAG 3 cut(s) 55, 238, 375
BstDSI CCRYGG 1 cut(s) 496
BstF5I GGATG 1 cut(s) 718
BstH2I RGCGCY 3 cut(s) 228, 256, 366
BstHHI GCGC 4 cut(s) 227, 255, 365, 388
BstKTI GATC 7 cut(s) 97, 161, 167, 354, 703, 718, 764
BstMAI GTCTC 1 cut(s) 241
BstMBI GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
BstMCI CGRYCG 1 cut(s) 564
BstNI CCWGG 1 cut(s) 555
BstSCI CCNGG 9 cut(s) 31, 271, 475, 538, 539, 553, 769, 814, 815
BstV1I GCAGC 5 cut(s) 75, 78, 255, 475, 671
BstX2I RGATCY 2 cut(s) 94, 761
BstXI CCANNNNNNTGG 1 cut(s) 137
BstYI RGATCY 2 cut(s) 94, 761
BsuRI GGCC 3 cut(s) 491, 544, 624
BtgI CCRYGG 1 cut(s) 496
BtgZI GCGATG 1 cut(s) 807
BtrI CACGTC 1 cut(s) 343
BtsCI GGATG 1 cut(s) 718
BveI ACCTGC 3 cut(s) 10, 589, 733
Cac8I GCNNGC 5 cut(s) 61, 172, 546, 586, 590
CfoI GCGC 4 cut(s) 227, 255, 365, 388
Cfr10I RCCGGY 1 cut(s) 643
Cfr13I GGNCC 5 cut(s) 438, 490, 542, 623, 641
Cfr9I CCCGGG 2 cut(s) 539, 815
CseI GACGC 2 cut(s) 273, 403
CspAI ACCGGT 1 cut(s) 643
CviAII CATG 8 cut(s) 6, 109, 346, 487, 497, 649, 872, 896
DdeI CTNAG 3 cut(s) 55, 238, 375
DinI GGCGCC 2 cut(s) 226, 254
DpnI GATC 7 cut(s) 96, 160, 166, 353, 702, 717, 763
DpnII GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
EciI GGCGGA 1 cut(s) 774
Eco130I CCWWGG 4 cut(s) 136, 216, 496, 696
Eco24I GRGCYC 1 cut(s) 895
Eco47I GGWCC 2 cut(s) 438, 641
Eco57I CTGAAG 1 cut(s) 453
Eco88I CYCGRG 3 cut(s) 256, 539, 815
EcoRI GAATTC 2 cut(s) 733, 799
EcoRII CCWGG 1 cut(s) 553
EcoT14I CCWWGG 4 cut(s) 136, 216, 496, 696
EcoT38I GRGCYC 1 cut(s) 895
EgeI GGCGCC 2 cut(s) 226, 254
EheI GGCGCC 2 cut(s) 226, 254
ErhI CCWWGG 4 cut(s) 136, 216, 496, 696
FaeI CATG 8 cut(s) 9, 112, 349, 490, 500, 652, 875, 899
FaqI GGGAC 3 cut(s) 206, 451, 502
FatI CATG 8 cut(s) 5, 108, 345, 486, 496, 648, 871, 895
FauI CCCGC 3 cut(s) 428, 577, 581
FbaI TGATCA 1 cut(s) 715
FblI GTMKAC 1 cut(s) 907
Fnu4HI GCNGC 7 cut(s) 64, 67, 205, 244, 464, 660, 812
FokI GGATG 1 cut(s) 725
FriOI GRGCYC 1 cut(s) 895
Fsp4HI GCNGC 7 cut(s) 64, 67, 205, 244, 464, 660, 812
FspBI CTAG 3 cut(s) 126, 396, 837
GlaI GCGC 4 cut(s) 226, 254, 364, 387
GluI GCNGC 7 cut(s) 64, 67, 205, 244, 464, 660, 812
GsaI CCCAGC 1 cut(s) 18
GsuI CTGGAG 1 cut(s) 771
HaeII RGCGCY 3 cut(s) 228, 256, 366
HaeIII GGCC 3 cut(s) 491, 544, 624
HgaI GACGC 2 cut(s) 273, 403
HhaI GCGC 4 cut(s) 227, 255, 365, 388
Hin1I GRCGYC 4 cut(s) 225, 253, 265, 414
Hin1II CATG 8 cut(s) 9, 112, 349, 490, 500, 652, 875, 899
Hin6I GCGC 4 cut(s) 225, 253, 363, 386
HinP1I GCGC 4 cut(s) 225, 253, 363, 386
HinfI GANTC 2 cut(s) 102, 511
HphI GGTGA 1 cut(s) 436
Hpy166II GTNNAC 3 cut(s) 29, 823, 908
Hpy188I TCNGA 4 cut(s) 75, 335, 608, 849
Hpy188III TCNNGA 5 cut(s) 162, 307, 508, 639, 704
Hpy8I GTNNAC 3 cut(s) 29, 823, 908
Hpy99I CGWCG 4 cut(s) 179, 212, 233, 608
HpyAV CCTTC 3 cut(s) 44, 477, 495
HpyCH4III ACNGT 3 cut(s) 119, 442, 854
HpyCH4IV ACGT 3 cut(s) 198, 342, 450
HpyF3I CTNAG 3 cut(s) 55, 238, 375
HpySE526I ACGT 3 cut(s) 198, 342, 450
Hsp92I GRCGYC 4 cut(s) 225, 253, 265, 414
Hsp92II CATG 8 cut(s) 9, 112, 349, 490, 500, 652, 875, 899
HspAI GCGC 4 cut(s) 225, 253, 363, 386
KasI GGCGCC 2 cut(s) 224, 252
Ksp22I TGATCA 1 cut(s) 715
Kzo9I GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
LmnI GCTCC 5 cut(s) 432, 462, 478, 479, 527
Lsp1109I GCAGC 5 cut(s) 75, 78, 255, 475, 671
LweI GCATC 1 cut(s) 784
MaeI CTAG 3 cut(s) 126, 396, 837
MaeII ACGT 3 cut(s) 198, 342, 450
MaeIII GTNAC 3 cut(s) 307, 442, 451
MalI GATC 7 cut(s) 96, 160, 166, 353, 702, 717, 763
MbiI CCGCTC 2 cut(s) 435, 482
MboI GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
MboII GAAGA 1 cut(s) 295
MflI RGATCY 2 cut(s) 94, 761
MhlI GDGCHC 1 cut(s) 895
MluCI AATT 4 cut(s) 733, 799, 826, 886
Mly113I GGCGCC 2 cut(s) 225, 253
MmeI TCCRAC 1 cut(s) 586
MseI TTAA 2 cut(s) 83, 919
MslI CAYNNNNRTG 2 cut(s) 74, 305
MspA1I CMGCKG 3 cut(s) 59, 170, 204
MspR9I CCNGG 9 cut(s) 33, 273, 477, 540, 541, 555, 771, 816, 817
MvaI CCWGG 1 cut(s) 555
NarI GGCGCC 2 cut(s) 225, 253
NciI CCSGG 8 cut(s) 33, 273, 477, 540, 541, 771, 816, 817
NcoI CCATGG 1 cut(s) 496
NdeII GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
NlaIII CATG 8 cut(s) 9, 112, 349, 490, 500, 652, 875, 899
NlaIV GGNNCC 4 cut(s) 226, 254, 439, 846
NmuCI GTSAC 3 cut(s) 307, 442, 451
PaqCI CACCTGC 2 cut(s) 10, 733
PcsI WCGNNNNNNNCGW 2 cut(s) 204, 612
PfeI GAWTC 2 cut(s) 102, 511
PflFI GACNNNGTC 1 cut(s) 197
PflMI CCANNNNNTGG 1 cut(s) 346
PfoI TCCNGGA 1 cut(s) 475
PinAI ACCGGT 1 cut(s) 643
PkrI GCNGC 7 cut(s) 65, 68, 206, 245, 465, 661, 813
PluTI GGCGCC 2 cut(s) 228, 256
Psp6I CCWGG 1 cut(s) 553
PspFI CCCAGC 1 cut(s) 14
PspGI CCWGG 1 cut(s) 553
PspN4I GGNNCC 4 cut(s) 226, 254, 439, 846
PspPI GGNCC 5 cut(s) 438, 490, 542, 623, 641
PsuI RGATCY 2 cut(s) 94, 761
PsyI GACNNNGTC 1 cut(s) 197
PvuII CAGCTG 2 cut(s) 59, 170
RseI CAYNNNNRTG 2 cut(s) 74, 305
SaqAI TTAA 2 cut(s) 83, 919
SatI GCNGC 7 cut(s) 64, 67, 205, 244, 464, 660, 812
Sau3AI GATC 7 cut(s) 94, 158, 164, 351, 700, 715, 761
Sau96I GGNCC 5 cut(s) 438, 490, 542, 623, 641
ScrFI CCNGG 9 cut(s) 33, 273, 477, 540, 541, 555, 771, 816, 817
SduI GDGCHC 1 cut(s) 895
SfaNI GCATC 1 cut(s) 784
SfoI GGCGCC 2 cut(s) 226, 254
SinI GGWCC 2 cut(s) 438, 641
SmaI CCCGGG 2 cut(s) 541, 817
SmiMI CAYNNNNRTG 2 cut(s) 74, 305
SrfI GCCCGGGC 1 cut(s) 541
Sse9I AATT 4 cut(s) 733, 799, 826, 886
SsiI CCGC 7 cut(s) 204, 435, 482, 584, 588, 759, 812
SspDI GGCGCC 2 cut(s) 224, 252
SspMI CTAG 3 cut(s) 126, 396, 837
StyD4I CCNGG 9 cut(s) 31, 271, 475, 538, 539, 553, 769, 814, 815
StyI CCWWGG 4 cut(s) 136, 216, 496, 696
TaaI ACNGT 3 cut(s) 119, 442, 854
TaiI ACGT 3 cut(s) 201, 345, 453
TaqI TCGA 2 cut(s) 231, 507
TasI AATT 4 cut(s) 733, 799, 826, 886
TauI GCSGC 2 cut(s) 207, 814
TfiI GAWTC 2 cut(s) 102, 511
Tru1I TTAA 2 cut(s) 83, 919
Tru9I TTAA 2 cut(s) 83, 919
TseFI GTSAC 3 cut(s) 307, 442, 451
TseI GCWGC 5 cut(s) 63, 66, 243, 463, 659
Tsp45I GTSAC 3 cut(s) 307, 442, 451
TspDTI ATGAA 5 cut(s) 92, 101, 125, 201, 699
TspMI CCCGGG 2 cut(s) 539, 815
Tth111I GACNNNGTC 1 cut(s) 197
Van91I CCANNNNNTGG 1 cut(s) 346
VpaK11BI GGWCC 2 cut(s) 438, 641
XapI RAATTY 2 cut(s) 733, 799
XcmI CCANNNNNNNNNTGG 1 cut(s) 137
XmaI CCCGGG 2 cut(s) 539, 815
XmiI GTMKAC 1 cut(s) 907
XspI CTAG 3 cut(s) 126, 396, 837
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.