Rmu_sc0006814.1_g000001

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0006814.1
OG0012533
Physical Location & Seq
Forward (+)
2911 .. 3855
945 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0006814.1_g000001.1.cds

Sequence Viewer

Length: 945 bp
atggcgaatcgatggtgggctggaaatgtggcgatgggagctcatgactcaatcaccgcctcgacaccaccgtctcttcatcttagaaactctgaagccgaagagcacaacaacaacaacacacccaccaacagcagcaccagcaacccaaacaacactccacctcagaagcaggacgacgaccaggacagccgtgacaacgatcgagaagttgacaatcaagaccctagctccggcggccccgacagcctcgagcctggctccagcaaccgccggcccagaggccgtccccccggctcgaaaaacaagccgaaaccgccgataatcatcaccaaagagtctcccaacgctctccggagccatgtcttggaaatcagcagcggcagcgacatcgtcgagagcattgccaccttcgcacagcgcaggcacagaggagtctccgtcttaagcggcagcggcattgtttctaacgtcactcttcgtcagccggccgcgccgagcggggtcataacgctccacggaaggttcgagattctgtccctaaacggtgcgtttctgcctgccccgtcgccgccgggggctagtggcctgaccgtgtacttgggcggcgggcaggggcaggtggttggtgggactgttgttggagctctgttggcttccgggccggtgatgatcattgcggcgacgttcactaatgccacttatgagagactgccgcttgaggatgagagcaatgaagggatgcaattgcaacagcagcagcagcagcagcaatccggtgtgaattcggcagggaccggagggaattcgggttctcagggcttgagtgatcagcagcaacaagtgcccatttacgctttgcctccgactttgcttccaaatggtcagatgccgcctgatgtgtactggggtcctccaccgcctagacctccgcctgcttactga
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF296

Protein Analysis

314

Amino Acids

33.01

Weight (kDa)

5.51

Isoelectric Point (pI)

59.81

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0012533)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G55560
fragaria_vesca FvH4_7g22970
malus_domestica MD01G1138500.v1.1 MD07G1202700.v1.1
prunus_persica Prupe.2G239000_v2.0.a1
pyrus_communis pycom01g15920 pycom07g18970
rosa_chinensis RchiOBHm_Chr1g0368171
rosa_laevigata RLG00000027233
rosa_multiflora Rmu_sc0006814.1_g000001 Rmu_sc0020763.1_g000001 Rmu_sc0035888.1_g000001
rosa_roxburghii Rroxscaffold_4G00288830
rosa_rugosa Rorug01G0339100
rosa_samantha Rh1AG346600 Rh1BG309200 Rh1CG324700 Rh1DG341100
rosa_wichuraiana Rw1G030810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 610
AasI GACNNNNNNGTC 1 cut(s) 70
Acc36I ACCTGC 1 cut(s) 610
AccB7I CCANNNNNTGG 1 cut(s) 367
AccBSI CCGCTC 1 cut(s) 501
AccII CGCG 1 cut(s) 494
AccIII TCCGGA 1 cut(s) 354
AcoI YGGCCR 1 cut(s) 489
AcsI RAATTY 2 cut(s) 784, 805
AcuI CTGAAG 1 cut(s) 114
AfaI GTAC 2 cut(s) 599, 905
AfiI CCNNNNNNNGG 2 cut(s) 233, 367
AflII CTTAAG 1 cut(s) 445
AjnI CCWGG 2 cut(s) 183, 256
AloI GAACNNNNNNTCC 2 cut(s) 796, 828
AluBI AGCT 3 cut(s) 41, 231, 647
AluI AGCT 3 cut(s) 41, 231, 647
Alw21I GWGCWC 3 cut(s) 43, 108, 649
Alw26I GTCTC 4 cut(s) 78, 345, 442, 703
Ama87I CYCGRG 1 cut(s) 251
Aor13HI TCCGGA 1 cut(s) 354
AoxI GGCC 6 cut(s) 238, 275, 283, 489, 586, 662
ApoI RAATTY 2 cut(s) 784, 805
AspLEI GCGC 2 cut(s) 423, 496
AspS9I GGNCC 5 cut(s) 239, 276, 662, 795, 911
AsuC2I CCSGG 3 cut(s) 294, 576, 661
AsuHPI GGTGA 3 cut(s) 46, 322, 679
AvaI CYCGRG 1 cut(s) 251
AvaII GGWCC 2 cut(s) 795, 911
BaeGI GKGCMC 1 cut(s) 849
BanII GRGCYC 2 cut(s) 43, 649
Bbv12I GWGCWC 3 cut(s) 43, 108, 649
BccI CCATC 2 cut(s) 6, 28
BceAI ACGGC 2 cut(s) 177, 270
BcgI CGANNNNNNTGC 4 cut(s) 373, 386, 407, 420
BciT130I CCWGG 2 cut(s) 185, 258
BclI TGATCA 2 cut(s) 672, 829
BcnI CCSGG 3 cut(s) 294, 576, 661
BcoDI GTCTC 4 cut(s) 78, 345, 442, 703
BfaI CTAG 3 cut(s) 228, 582, 924
BfrI CTTAAG 1 cut(s) 445
BfuAI ACCTGC 1 cut(s) 610
Bme1390I CCNGG 5 cut(s) 185, 258, 294, 576, 661
Bme18I GGWCC 2 cut(s) 795, 911
BmeT110I CYCGRG 1 cut(s) 251
BmgT120I GGNCC 5 cut(s) 239, 276, 662, 795, 911
BmiI GGNNCC 5 cut(s) 241, 262, 359, 796, 912
BmrFI CCNGG 5 cut(s) 185, 258, 294, 576, 661
BmrI ACTGGG 1 cut(s) 916
BmsI GCATC 2 cut(s) 732, 879
BmuI ACTGGG 1 cut(s) 916
BplI GAGNNNNNCTC 2 cut(s) 245, 277
BpmI CTGGAG 1 cut(s) 247
BpuEI CTTGAG 2 cut(s) 740, 844
BpuMI CCSGG 3 cut(s) 294, 576, 661
Bsa29I ATCGAT 1 cut(s) 10
BsaBI GATNNNNATC 1 cut(s) 326
BsaJI CCNNGG 3 cut(s) 292, 517, 575
BsaWI WCCGGW 3 cut(s) 354, 776, 797
BsaXI ACNNNNNCTCC 4 cut(s) 215, 245, 426, 456
Bsc4I CCNNNNNNNGG 2 cut(s) 233, 367
Bse118I RCCGGY 3 cut(s) 273, 487, 664
Bse1I ACTGG 1 cut(s) 911
Bse3DI GCAATG 3 cut(s) 402, 675, 739
Bse8I GATNNNNATC 1 cut(s) 326
BseAI TCCGGA 1 cut(s) 354
BseBI CCWGG 2 cut(s) 185, 258
BseCI ATCGAT 1 cut(s) 10
BseDI CCNNGG 3 cut(s) 292, 517, 575
BseGI GGATG 2 cut(s) 730, 747
BseJI GATNNNNATC 1 cut(s) 326
BseLI CCNNNNNNNGG 2 cut(s) 233, 367
BseMI GCAATG 3 cut(s) 402, 675, 739
BseMII CTCAG 2 cut(s) 179, 830
BseNI ACTGG 1 cut(s) 911
BseRI GAGGAG 1 cut(s) 447
BseSI GKGCMC 1 cut(s) 849
BseX3I CGGCCG 1 cut(s) 489
Bsh1236I CGCG 1 cut(s) 494
Bsh1285I CGRYCG 2 cut(s) 205, 492
BshFI GGCC 6 cut(s) 240, 277, 285, 491, 588, 664
BshVI ATCGAT 1 cut(s) 10
BsiEI CGRYCG 2 cut(s) 205, 492
BsiHKAI GWGCWC 3 cut(s) 43, 108, 649
BsiHKCI CYCGRG 1 cut(s) 251
BslFI GGGAC 4 cut(s) 273, 523, 646, 808
BslI CCNNNNNNNGG 2 cut(s) 233, 367
BsmAI GTCTC 4 cut(s) 78, 345, 442, 703
BsmBI CGTCTC 1 cut(s) 78
BsmFI GGGAC 4 cut(s) 273, 523, 646, 808
BsnI GGCC 6 cut(s) 240, 277, 285, 491, 588, 664
BsoBI CYCGRG 1 cut(s) 251
Bsp1286I GDGCHC 4 cut(s) 43, 108, 649, 849
Bsp13I TCCGGA 1 cut(s) 354
Bsp143I GATC 3 cut(s) 202, 672, 829
BspANI GGCC 6 cut(s) 240, 277, 285, 491, 588, 664
BspCNI CTCAG 2 cut(s) 178, 829
BspDI ATCGAT 1 cut(s) 10
BspEI TCCGGA 1 cut(s) 354
BspFNI CGCG 1 cut(s) 494
BspHI TCATGA 1 cut(s) 43
BspLI GGNNCC 5 cut(s) 241, 262, 359, 796, 912
BspMI ACCTGC 1 cut(s) 610
BspQI GCTCTTC 1 cut(s) 96
BspTI CTTAAG 1 cut(s) 445
BsrBI CCGCTC 1 cut(s) 501
BsrDI GCAATG 3 cut(s) 402, 675, 739
BsrFI RCCGGY 3 cut(s) 273, 487, 664
BsrI ACTGG 1 cut(s) 911
BssAI RCCGGY 3 cut(s) 273, 487, 664
BssECI CCNNGG 3 cut(s) 292, 517, 575
BssMI GATC 3 cut(s) 202, 672, 829
Bst2UI CCWGG 2 cut(s) 185, 258
Bst4CI ACNGT 4 cut(s) 72, 548, 595, 637
Bst6I CTCTTC 3 cut(s) 81, 96, 483
BstAFI CTTAAG 1 cut(s) 445
BstAPI GCANNNNNTGC 1 cut(s) 844
BstC8I GCNNGC 6 cut(s) 275, 425, 489, 561, 611, 936
BstDEI CTNAG 3 cut(s) 83, 165, 816
BstDSI CCRYGG 1 cut(s) 517
BstF5I GGATG 2 cut(s) 730, 747
BstFNI CGCG 1 cut(s) 494
BstHHI GCGC 2 cut(s) 423, 496
BstKTI GATC 3 cut(s) 205, 675, 832
BstMAI GTCTC 4 cut(s) 78, 345, 442, 703
BstMBI GATC 3 cut(s) 202, 672, 829
BstMCI CGRYCG 2 cut(s) 205, 492
BstNI CCWGG 2 cut(s) 185, 258
BstSCI CCNGG 5 cut(s) 183, 256, 292, 574, 659
BstSLI GKGCMC 1 cut(s) 849
BstUI CGCG 1 cut(s) 494
BstZI CGGCCG 1 cut(s) 489
Bsu15I ATCGAT 1 cut(s) 10
BsuRI GGCC 6 cut(s) 240, 277, 285, 491, 588, 664
BsuTUI ATCGAT 1 cut(s) 10
BtgI CCRYGG 1 cut(s) 517
BtgZI GCGATG 1 cut(s) 47
BtsCI GGATG 2 cut(s) 730, 747
BveI ACCTGC 1 cut(s) 610
Cac8I GCNNGC 6 cut(s) 275, 425, 489, 561, 611, 936
CciI TCATGA 1 cut(s) 43
CfoI GCGC 2 cut(s) 423, 496
Cfr10I RCCGGY 3 cut(s) 273, 487, 664
Cfr13I GGNCC 5 cut(s) 239, 276, 662, 795, 911
ClaI ATCGAT 1 cut(s) 10
Csp6I GTAC 2 cut(s) 598, 904
CviAII CATG 2 cut(s) 44, 362
CviQI GTAC 2 cut(s) 598, 904
DdeI CTNAG 3 cut(s) 83, 165, 816
DpnI GATC 3 cut(s) 204, 674, 831
DpnII GATC 3 cut(s) 202, 672, 829
DrdI GACNNNNNNGTC 1 cut(s) 70
DseDI GACNNNNNNGTC 1 cut(s) 70
EaeI YGGCCR 1 cut(s) 489
EagI CGGCCG 1 cut(s) 489
Eam1104I CTCTTC 3 cut(s) 81, 96, 483
EarI CTCTTC 3 cut(s) 81, 96, 483
EciI GGCGGA 1 cut(s) 921
Ecl136II GAGCTC 2 cut(s) 41, 647
EclXI CGGCCG 1 cut(s) 489
Eco24I GRGCYC 2 cut(s) 43, 649
Eco47I GGWCC 2 cut(s) 795, 911
Eco52I CGGCCG 1 cut(s) 489
Eco53kI GAGCTC 2 cut(s) 41, 647
Eco57I CTGAAG 1 cut(s) 114
Eco88I CYCGRG 1 cut(s) 251
EcoICRI GAGCTC 2 cut(s) 41, 647
EcoO109I RGGNCCY 1 cut(s) 911
EcoRI GAATTC 2 cut(s) 784, 805
EcoRII CCWGG 2 cut(s) 183, 256
EcoT38I GRGCYC 2 cut(s) 43, 649
Esp3I CGTCTC 1 cut(s) 78
FaeI CATG 2 cut(s) 47, 365
FaiI YATR 4 cut(s) 45, 363, 509, 705
FaqI GGGAC 4 cut(s) 273, 523, 646, 808
FatI CATG 2 cut(s) 43, 361
FauI CCCGC 2 cut(s) 494, 602
FbaI TGATCA 2 cut(s) 672, 829
FokI GGATG 2 cut(s) 737, 754
FriOI GRGCYC 2 cut(s) 43, 649
FspBI CTAG 3 cut(s) 228, 582, 924
GlaI GCGC 2 cut(s) 422, 495
GsuI CTGGAG 1 cut(s) 247
HaeIII GGCC 6 cut(s) 240, 277, 285, 491, 588, 664
HhaI GCGC 2 cut(s) 423, 496
Hin1II CATG 2 cut(s) 47, 365
Hin6I GCGC 2 cut(s) 421, 494
HinP1I GCGC 2 cut(s) 421, 494
HincII GTYRAC 1 cut(s) 214
HindII GTYRAC 1 cut(s) 214
HinfI GANTC 5 cut(s) 7, 47, 338, 435, 532
HphI GGTGA 3 cut(s) 46, 322, 679
Hpy166II GTNNAC 4 cut(s) 214, 598, 690, 904
Hpy188I TCNGA 4 cut(s) 94, 168, 867, 888
Hpy188III TCNNGA 6 cut(s) 44, 206, 221, 355, 397, 529
Hpy8I GTNNAC 4 cut(s) 214, 598, 690, 904
Hpy99I CGWCG 4 cut(s) 182, 398, 571, 688
HpyAV CCTTC 3 cut(s) 421, 516, 731
HpyCH4III ACNGT 4 cut(s) 72, 548, 595, 637
HpyCH4IV ACGT 2 cut(s) 471, 686
HpyCH4V TGCA 2 cut(s) 745, 751
HpyF3I CTNAG 3 cut(s) 83, 165, 816
HpySE526I ACGT 2 cut(s) 471, 686
Hsp92II CATG 2 cut(s) 47, 365
HspAI GCGC 2 cut(s) 421, 494
Kpn2I TCCGGA 1 cut(s) 354
KroI GCCGGC 2 cut(s) 273, 487
KroNI GCCGGC 2 cut(s) 275, 489
Ksp22I TGATCA 2 cut(s) 672, 829
Kzo9I GATC 3 cut(s) 202, 672, 829
LguI GCTCTTC 1 cut(s) 96
LmnI GCTCC 6 cut(s) 38, 236, 266, 357, 519, 644
LweI GCATC 2 cut(s) 732, 879
MaeI CTAG 3 cut(s) 228, 582, 924
MaeII ACGT 2 cut(s) 471, 686
MaeIII GTNAC 2 cut(s) 194, 472
MalI GATC 3 cut(s) 204, 674, 831
MbiI CCGCTC 1 cut(s) 501
MboI GATC 3 cut(s) 202, 672, 829
MboII GAAGA 3 cut(s) 68, 113, 470
MfeI CAATTG 1 cut(s) 746
MhlI GDGCHC 4 cut(s) 43, 108, 649, 849
MluCI AATT 3 cut(s) 746, 784, 805
MlyI GAGTC 3 cut(s) 41, 347, 444
MmeI TCCRAC 2 cut(s) 622, 890
MroI TCCGGA 1 cut(s) 354
MroNI GCCGGC 2 cut(s) 273, 487
MseI TTAA 1 cut(s) 446
MspA1I CMGCKG 2 cut(s) 381, 456
MspCI CTTAAG 1 cut(s) 445
MspR9I CCNGG 5 cut(s) 185, 258, 294, 576, 661
MunI CAATTG 1 cut(s) 746
MvaI CCWGG 2 cut(s) 185, 258
MvnI CGCG 1 cut(s) 494
NaeI GCCGGC 2 cut(s) 275, 489
NciI CCSGG 3 cut(s) 294, 576, 661
NdeII GATC 3 cut(s) 202, 672, 829
NgoMIV GCCGGC 2 cut(s) 273, 487
NlaIII CATG 2 cut(s) 47, 365
NlaIV GGNNCC 5 cut(s) 241, 262, 359, 796, 912
NmeAIII GCCGAG 1 cut(s) 522
NmuCI GTSAC 2 cut(s) 194, 472
PaeR7I CTCGAG 1 cut(s) 251
PagI TCATGA 1 cut(s) 43
PaqCI CACCTGC 1 cut(s) 610
PciSI GCTCTTC 1 cut(s) 96
PcsI WCGNNNNNNNCGW 2 cut(s) 68, 525
PdiI GCCGGC 2 cut(s) 275, 489
PfeI GAWTC 2 cut(s) 7, 532
PflFI GACNNNGTC 1 cut(s) 392
PflMI CCANNNNNTGG 1 cut(s) 367
Ple19I CGATCG 1 cut(s) 205
PleI GAGTC 3 cut(s) 41, 346, 443
PpsI GAGTC 3 cut(s) 41, 346, 443
PpuMI RGGWCCY 1 cut(s) 911
Psp124BI GAGCTC 2 cut(s) 43, 649
Psp5II RGGWCCY 1 cut(s) 911
Psp6I CCWGG 2 cut(s) 183, 256
PspGI CCWGG 2 cut(s) 183, 256
PspN4I GGNNCC 5 cut(s) 241, 262, 359, 796, 912
PspPI GGNCC 5 cut(s) 239, 276, 662, 795, 911
PspPPI RGGWCCY 1 cut(s) 911
PspXI VCTCGAGB 1 cut(s) 251
PsyI GACNNNGTC 1 cut(s) 392
PvuI CGATCG 1 cut(s) 205
RsaI GTAC 2 cut(s) 599, 905
RsaNI GTAC 2 cut(s) 598, 904
SacI GAGCTC 2 cut(s) 43, 649
SapI GCTCTTC 1 cut(s) 96
SaqAI TTAA 1 cut(s) 446
Sau3AI GATC 3 cut(s) 202, 672, 829
Sau96I GGNCC 5 cut(s) 239, 276, 662, 795, 911
SchI GAGTC 3 cut(s) 41, 347, 444
ScrFI CCNGG 5 cut(s) 185, 258, 294, 576, 661
SduI GDGCHC 4 cut(s) 43, 108, 649, 849
SfaNI GCATC 2 cut(s) 732, 879
Sfr274I CTCGAG 1 cut(s) 251
SinI GGWCC 2 cut(s) 795, 911
SlaI CTCGAG 1 cut(s) 251
SmlI CTYRAG 4 cut(s) 251, 445, 719, 823
SmoI CTYRAG 4 cut(s) 251, 445, 719, 823
Sse9I AATT 3 cut(s) 746, 784, 805
SspMI CTAG 3 cut(s) 228, 582, 924
SstI GAGCTC 2 cut(s) 43, 649
StyD4I CCNGG 5 cut(s) 183, 256, 292, 574, 659
TaaI ACNGT 4 cut(s) 72, 548, 595, 637
TaiI ACGT 2 cut(s) 474, 689
TaqI TCGA 7 cut(s) 10, 62, 205, 252, 299, 396, 528
TasI AATT 3 cut(s) 746, 784, 805
TatI WGTACW 2 cut(s) 597, 903
TfiI GAWTC 2 cut(s) 7, 532
Tru1I TTAA 1 cut(s) 446
Tru9I TTAA 1 cut(s) 446
TseFI GTSAC 2 cut(s) 194, 472
Tsp45I GTSAC 2 cut(s) 194, 472
TspDTI ATGAA 2 cut(s) 68, 750
TspGWI ACGGA 2 cut(s) 430, 534
Tth111I GACNNNGTC 1 cut(s) 392
Van91I CCANNNNNTGG 1 cut(s) 367
Vha464I CTTAAG 1 cut(s) 445
VpaK11BI GGWCC 2 cut(s) 795, 911
XapI RAATTY 2 cut(s) 784, 805
XhoI CTCGAG 1 cut(s) 251
XspI CTAG 3 cut(s) 228, 582, 924
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.