Rmu_sc0004092.1_g000044

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_sc0004092.1
OG0016914
Physical Location & Seq
Forward (+)
182562 .. 183431
870 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004092.1_g000044.1.cds

Sequence Viewer

Length: 870 bp
atggctgggttagacttgggctcagcatctcgcttgtttcatcagcagctccagctccccgaccttcacctccaaagaccaccggaatctgaagatcatgacaacctcttcaactcggatcaccaccaccaaaacgacgttggtgatgatgacagcaatcttcgccaagggcttgaccttgtgaccccaaactccggaggctctggcggagatggttcggctcgaaggtccaggggtcggcctcctgggtcaagaaataagcccaaacctccggtgatcataacccgggagagcgccaacacgctcagagctcatattctggaggtcagcagcggctgcgatgtgttcgactgcgttggtacctacgcccggaagcggcagcgtgggatttgcgtcttgagtgggagtgggatggtgaccaacgtgaccttgcgccagccggctggagctggcgcagtggtcacgctacacggcaggttcgagatcctgtcgctgaccggctcgttcctgccgccgcctgccccaccaggcgccaccagcctgacgatattcttggcaggcggtcagggccaggtcgtgggaggaaatgttgtgggacctctcatagcatcaggacctgtgatcgtcatagcttcttcttttaccaacgtggcttatgagaggttgccgttggaggaggaagaggagcagctgcagattcagccgcctgtgccgcagtcttccggcggtggcggaagtggaggagtaggcaataacaacccatttccagatccgtcttcggggcttcccttcttcaatctgcccctgaataacatgcctcagctacaagatggttgggctggaaaccctactgggcgaccatcatattga
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

289

Amino Acids

30.28

Weight (kDa)

5.72

Isoelectric Point (pI)

61.61

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016914)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g08070
malus_domestica MD02G1236500.v1.1 MD07G1083600.v1.1
prunus_persica Prupe.2G108200_v2.0.a1
pyrus_communis pycom02g19880
rosa_chinensis RchiOBHm_Chr1g0341251
rosa_laevigata RLG00000029075
rosa_multiflora Rmu_sc0004092.1_g000044
rosa_rugosa Rorug01G0158500.1
rosa_samantha Rh1AG172800 Rh1BG140900 Rh1CG160900 Rh1DG173100
rosa_wichuraiana Rw1G014420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 465
Acc65I GGTACC 1 cut(s) 359
AccB1I GGYRCC 2 cut(s) 359, 530
AccB7I CCANNNNNTGG 1 cut(s) 577
AccIII TCCGGA 1 cut(s) 194
AclWI GGATC 3 cut(s) 126, 478, 764
AcuI CTGAAG 1 cut(s) 111
AcyI GRCGYC 1 cut(s) 531
AfaI GTAC 1 cut(s) 361
AfiI CCNNNNNNNGG 6 cut(s) 194, 237, 369, 375, 577, 779
AgsI TTSAA 2 cut(s) 112, 796
AjnI CCWGG 4 cut(s) 230, 244, 526, 570
AluBI AGCT 7 cut(s) 49, 55, 311, 449, 632, 691, 823
AluI AGCT 7 cut(s) 49, 55, 311, 449, 632, 691, 823
Alw21I GWGCWC 1 cut(s) 313
AlwI GGATC 3 cut(s) 126, 478, 764
AlwNI CAGNNNCTG 2 cut(s) 336, 617
Ama87I CYCGRG 1 cut(s) 285
Aor13HI TCCGGA 1 cut(s) 194
AoxI GGCC 2 cut(s) 239, 568
ApeKI GCWGC 6 cut(s) 46, 330, 336, 379, 688, 691
Asp718I GGTACC 1 cut(s) 359
AspLEI GCGC 4 cut(s) 296, 435, 455, 533
AspS9I GGNCC 4 cut(s) 228, 568, 596, 614
AsuC2I CCSGG 3 cut(s) 286, 287, 370
AsuHPI GGTGA 5 cut(s) 59, 113, 155, 286, 427
AvaI CYCGRG 1 cut(s) 285
AvaII GGWCC 3 cut(s) 228, 596, 614
BanI GGYRCC 2 cut(s) 359, 530
BanII GRGCYC 2 cut(s) 23, 313
BbsI GAAGAC 2 cut(s) 711, 768
Bbv12I GWGCWC 1 cut(s) 313
BbvCI CCTCAGC 1 cut(s) 819
BbvI GCAGC 6 cut(s) 58, 323, 342, 391, 678, 700
BccI CCATC 4 cut(s) 206, 406, 824, 868
BceAI ACGGC 2 cut(s) 487, 652
BciT130I CCWGG 4 cut(s) 232, 246, 528, 572
BclI TGATCA 1 cut(s) 276
BcnI CCSGG 3 cut(s) 286, 287, 370
BfmI CTRYAG 1 cut(s) 692
BfoI RGCGCY 2 cut(s) 297, 534
BfuAI ACCTGC 1 cut(s) 465
BlpI GCTNAGC 1 cut(s) 22
Bme1390I CCNGG 7 cut(s) 232, 246, 286, 287, 370, 528, 572
Bme18I GGWCC 3 cut(s) 228, 596, 614
BmeT110I CYCGRG 1 cut(s) 285
BmgT120I GGNCC 4 cut(s) 228, 568, 596, 614
BmiI GGNNCC 3 cut(s) 361, 532, 597
BmrFI CCNGG 7 cut(s) 232, 246, 286, 287, 370, 528, 572
BmrI ACTGGG 1 cut(s) 861
BmsI GCATC 2 cut(s) 35, 617
BmuI ACTGGG 1 cut(s) 861
BpiI GAAGAC 2 cut(s) 711, 768
BpmI CTGGAG 3 cut(s) 35, 341, 465
Bpu10I CCTNAGC 1 cut(s) 819
Bpu1102I GCTNAGC 1 cut(s) 22
BpuEI CTTGAG 1 cut(s) 418
BpuMI CCSGG 3 cut(s) 286, 287, 370
BsaHI GRCGYC 1 cut(s) 531
BsaJI CCNNGG 4 cut(s) 166, 231, 245, 285
BsaWI WCCGGW 3 cut(s) 82, 194, 271
BsaXI ACNNNNNCTCC 2 cut(s) 573, 603
Bsc4I CCNNNNNNNGG 6 cut(s) 194, 237, 369, 375, 577, 779
Bse118I RCCGGY 2 cut(s) 439, 497
Bse1I ACTGG 1 cut(s) 856
BseAI TCCGGA 1 cut(s) 194
BseBI CCWGG 4 cut(s) 232, 246, 528, 572
BseDI CCNNGG 4 cut(s) 166, 231, 245, 285
BseGI GGATG 1 cut(s) 417
BseLI CCNNNNNNNGG 6 cut(s) 194, 237, 369, 375, 577, 779
BseMII CTCAG 3 cut(s) 36, 319, 833
BseNI ACTGG 1 cut(s) 856
BseRI GAGGAG 3 cut(s) 689, 698, 756
BseXI GCAGC 6 cut(s) 58, 323, 342, 391, 678, 700
BseYI CCCAGC 1 cut(s) 5
BshFI GGCC 2 cut(s) 241, 570
BshNI GGYRCC 2 cut(s) 359, 530
BsiHKAI GWGCWC 1 cut(s) 313
BsiHKCI CYCGRG 1 cut(s) 285
BsiSI CCGG 8 cut(s) 83, 195, 272, 286, 370, 440, 498, 723
BslFI GGGAC 1 cut(s) 609
BslI CCNNNNNNNGG 6 cut(s) 194, 237, 369, 375, 577, 779
BsmFI GGGAC 1 cut(s) 609
BsnI GGCC 2 cut(s) 241, 570
BsoBI CYCGRG 1 cut(s) 285
Bsp1286I GDGCHC 2 cut(s) 23, 313
Bsp13I TCCGGA 1 cut(s) 194
Bsp143I GATC 6 cut(s) 94, 118, 276, 483, 621, 769
Bsp1720I GCTNAGC 1 cut(s) 22
BspANI GGCC 2 cut(s) 241, 570
BspCNI CTCAG 3 cut(s) 35, 318, 832
BspEI TCCGGA 1 cut(s) 194
BspHI TCATGA 1 cut(s) 97
BspLI GGNNCC 3 cut(s) 361, 532, 597
BspMAI CTGCAG 1 cut(s) 696
BspMI ACCTGC 1 cut(s) 465
BspPI GGATC 3 cut(s) 126, 478, 764
BspT107I GGYRCC 2 cut(s) 359, 530
BsrFI RCCGGY 2 cut(s) 439, 497
BsrI ACTGG 1 cut(s) 856
BssAI RCCGGY 2 cut(s) 439, 497
BssECI CCNNGG 4 cut(s) 166, 231, 245, 285
BssMI GATC 6 cut(s) 94, 118, 276, 483, 621, 769
BssNI GRCGYC 1 cut(s) 531
BssT1I CCWWGG 1 cut(s) 166
Bst2UI CCWGG 4 cut(s) 232, 246, 528, 572
Bst6I CTCTTC 2 cut(s) 113, 675
BstACI GRCGYC 1 cut(s) 531
BstAPI GCANNNNNTGC 1 cut(s) 336
BstC8I GCNNGC 5 cut(s) 437, 441, 451, 519, 559
BstDEI CTNAG 3 cut(s) 22, 305, 819
BstEII GGTNACC 1 cut(s) 415
BstF5I GGATG 1 cut(s) 417
BstH2I RGCGCY 2 cut(s) 297, 534
BstHHI GCGC 4 cut(s) 296, 435, 455, 533
BstKTI GATC 6 cut(s) 97, 121, 279, 486, 624, 772
BstMBI GATC 6 cut(s) 94, 118, 276, 483, 621, 769
BstMWI GCNNNNNNNGC 8 cut(s) 52, 162, 336, 537, 567, 700, 709, 712
BstNI CCWGG 4 cut(s) 232, 246, 528, 572
BstNSI RCATGY 1 cut(s) 817
BstPI GGTNACC 1 cut(s) 415
BstSCI CCNGG 7 cut(s) 230, 244, 284, 285, 368, 526, 570
BstSFI CTRYAG 1 cut(s) 692
BstV1I GCAGC 6 cut(s) 58, 323, 342, 391, 678, 700
BstV2I GAAGAC 2 cut(s) 711, 768
BstX2I RGATCY 2 cut(s) 483, 769
BstXI CCANNNNNNTGG 1 cut(s) 443
BstYI RGATCY 2 cut(s) 483, 769
BsuRI GGCC 2 cut(s) 241, 570
BtgZI GCGATG 1 cut(s) 354
BtsCI GGATG 1 cut(s) 417
BtsI GCAGTG 1 cut(s) 462
BtsIMutI CAGTG 1 cut(s) 462
BveI ACCTGC 1 cut(s) 465
Cac8I GCNNGC 5 cut(s) 437, 441, 451, 519, 559
CaiI CAGNNNCTG 2 cut(s) 336, 617
CciI TCATGA 1 cut(s) 97
CfoI GCGC 4 cut(s) 296, 435, 455, 533
Cfr10I RCCGGY 2 cut(s) 439, 497
Cfr13I GGNCC 4 cut(s) 228, 568, 596, 614
Cfr9I CCCGGG 1 cut(s) 285
CseI GACGC 1 cut(s) 382
Csp6I GTAC 1 cut(s) 360
CviAII CATG 2 cut(s) 98, 814
CviQI GTAC 1 cut(s) 360
DdeI CTNAG 3 cut(s) 22, 305, 819
DinI GGCGCC 1 cut(s) 532
DpnI GATC 6 cut(s) 96, 120, 278, 485, 623, 771
DpnII GATC 6 cut(s) 94, 118, 276, 483, 621, 769
Eam1104I CTCTTC 2 cut(s) 113, 675
EarI CTCTTC 2 cut(s) 113, 675
EciI GGCGGA 2 cut(s) 222, 747
Ecl136II GAGCTC 1 cut(s) 311
Eco130I CCWWGG 1 cut(s) 166
Eco24I GRGCYC 2 cut(s) 23, 313
Eco47I GGWCC 3 cut(s) 228, 596, 614
Eco53kI GAGCTC 1 cut(s) 311
Eco57I CTGAAG 1 cut(s) 111
Eco88I CYCGRG 1 cut(s) 285
Eco91I GGTNACC 1 cut(s) 415
EcoICRI GAGCTC 1 cut(s) 311
EcoO109I RGGNCCY 2 cut(s) 596, 614
EcoO65I GGTNACC 1 cut(s) 415
EcoRII CCWGG 4 cut(s) 230, 244, 526, 570
EcoT14I CCWWGG 1 cut(s) 166
EcoT38I GRGCYC 2 cut(s) 23, 313
EgeI GGCGCC 1 cut(s) 532
EheI GGCGCC 1 cut(s) 532
ErhI CCWWGG 1 cut(s) 166
FaeI CATG 2 cut(s) 101, 817
FaiI YATR 8 cut(s) 99, 281, 315, 605, 629, 657, 815, 865
FaqI GGGAC 1 cut(s) 609
FatI CATG 2 cut(s) 97, 813
FbaI TGATCA 1 cut(s) 276
FokI GGATG 1 cut(s) 424
FriOI GRGCYC 2 cut(s) 23, 313
GlaI GCGC 4 cut(s) 295, 434, 454, 532
GsaI CCCAGC 1 cut(s) 9
GsuI CTGGAG 3 cut(s) 35, 341, 465
HaeII RGCGCY 2 cut(s) 297, 534
HaeIII GGCC 2 cut(s) 241, 570
HapII CCGG 8 cut(s) 83, 195, 272, 286, 370, 440, 498, 723
HgaI GACGC 1 cut(s) 382
HhaI GCGC 4 cut(s) 296, 435, 455, 533
Hin1I GRCGYC 1 cut(s) 531
Hin1II CATG 2 cut(s) 101, 817
Hin6I GCGC 4 cut(s) 294, 433, 453, 531
HinP1I GCGC 4 cut(s) 294, 433, 453, 531
HinfI GANTC 2 cut(s) 86, 697
HpaII CCGG 8 cut(s) 83, 195, 272, 286, 370, 440, 498, 723
HphI GGTGA 5 cut(s) 59, 113, 155, 286, 427
Hpy188I TCNGA 3 cut(s) 91, 118, 308
Hpy188III TCNNGA 8 cut(s) 98, 195, 252, 320, 397, 481, 612, 767
Hpy99I CGWCG 1 cut(s) 140
HpyAV CCTTC 3 cut(s) 74, 219, 799
HpyCH4IV ACGT 3 cut(s) 138, 423, 648
HpyCH4V TGCA 1 cut(s) 694
HpyF10VI GCNNNNNNNGC 8 cut(s) 52, 162, 336, 537, 567, 700, 709, 712
HpyF3I CTNAG 3 cut(s) 22, 305, 819
HpySE526I ACGT 3 cut(s) 138, 423, 648
Hsp92I GRCGYC 1 cut(s) 531
Hsp92II CATG 2 cut(s) 101, 817
HspAI GCGC 4 cut(s) 294, 433, 453, 531
KasI GGCGCC 1 cut(s) 530
Kpn2I TCCGGA 1 cut(s) 194
KpnI GGTACC 1 cut(s) 363
KroI GCCGGC 1 cut(s) 439
KroNI GCCGGC 1 cut(s) 441
Ksp22I TGATCA 1 cut(s) 276
Kzo9I GATC 6 cut(s) 94, 118, 276, 483, 621, 769
LmnI GCTCC 4 cut(s) 54, 60, 446, 685
Lsp1109I GCAGC 6 cut(s) 58, 323, 342, 391, 678, 700
LweI GCATC 2 cut(s) 35, 617
MaeII ACGT 3 cut(s) 138, 423, 648
MaeIII GTNAC 4 cut(s) 181, 415, 424, 460
MalI GATC 6 cut(s) 96, 120, 278, 485, 623, 771
MboI GATC 6 cut(s) 94, 118, 276, 483, 621, 769
MboII GAAGA 8 cut(s) 100, 104, 152, 627, 692, 711, 768, 784
MflI RGATCY 2 cut(s) 483, 769
MhlI GDGCHC 2 cut(s) 23, 313
Mly113I GGCGCC 1 cut(s) 531
MmeI TCCRAC 1 cut(s) 651
MroI TCCGGA 1 cut(s) 194
MroNI GCCGGC 1 cut(s) 439
MspA1I CMGCKG 2 cut(s) 333, 691
MspI CCGG 8 cut(s) 83, 195, 272, 286, 370, 440, 498, 723
MspR9I CCNGG 7 cut(s) 232, 246, 286, 287, 370, 528, 572
MvaI CCWGG 4 cut(s) 232, 246, 528, 572
MwoI GCNNNNNNNGC 8 cut(s) 52, 162, 336, 537, 567, 700, 709, 712
NaeI GCCGGC 1 cut(s) 441
NarI GGCGCC 1 cut(s) 531
NciI CCSGG 3 cut(s) 286, 287, 370
NdeII GATC 6 cut(s) 94, 118, 276, 483, 621, 769
NgoMIV GCCGGC 1 cut(s) 439
NlaIII CATG 2 cut(s) 101, 817
NlaIV GGNNCC 3 cut(s) 361, 532, 597
NmuCI GTSAC 4 cut(s) 181, 415, 424, 460
NspI RCATGY 1 cut(s) 817
PagI TCATGA 1 cut(s) 97
PcsI WCGNNNNNNNCGW 1 cut(s) 477
PdiI GCCGGC 1 cut(s) 441
PfeI GAWTC 2 cut(s) 86, 697
PflMI CCANNNNNTGG 1 cut(s) 577
PluTI GGCGCC 1 cut(s) 534
PpuMI RGGWCCY 2 cut(s) 596, 614
Psp124BI GAGCTC 1 cut(s) 313
Psp5II RGGWCCY 2 cut(s) 596, 614
Psp6I CCWGG 4 cut(s) 230, 244, 526, 570
PspEI GGTNACC 1 cut(s) 415
PspFI CCCAGC 1 cut(s) 5
PspGI CCWGG 4 cut(s) 230, 244, 526, 570
PspN4I GGNNCC 3 cut(s) 361, 532, 597
PspPI GGNCC 4 cut(s) 228, 568, 596, 614
PspPPI RGGWCCY 2 cut(s) 596, 614
PstI CTGCAG 1 cut(s) 696
PstNI CAGNNNCTG 2 cut(s) 336, 617
PsuI RGATCY 2 cut(s) 483, 769
PvuII CAGCTG 1 cut(s) 691
RsaI GTAC 1 cut(s) 361
RsaNI GTAC 1 cut(s) 360
SacI GAGCTC 1 cut(s) 313
Sau3AI GATC 6 cut(s) 94, 118, 276, 483, 621, 769
Sau96I GGNCC 4 cut(s) 228, 568, 596, 614
ScrFI CCNGG 7 cut(s) 232, 246, 286, 287, 370, 528, 572
SduI GDGCHC 2 cut(s) 23, 313
SfaNI GCATC 2 cut(s) 35, 617
SfcI CTRYAG 1 cut(s) 692
SfoI GGCGCC 1 cut(s) 532
SinI GGWCC 3 cut(s) 228, 596, 614
SmaI CCCGGG 1 cut(s) 287
SmlI CTYRAG 1 cut(s) 397
SmoI CTYRAG 1 cut(s) 397
SspDI GGCGCC 1 cut(s) 530
SstI GAGCTC 1 cut(s) 313
StyD4I CCNGG 7 cut(s) 230, 244, 284, 285, 368, 526, 570
StyI CCWWGG 1 cut(s) 166
TaiI ACGT 3 cut(s) 141, 426, 651
TaqI TCGA 3 cut(s) 223, 348, 480
TauI GCSGC 6 cut(s) 336, 379, 514, 517, 706, 715
TfiI GAWTC 2 cut(s) 86, 697
TscAI CASTG 1 cut(s) 462
TseFI GTSAC 4 cut(s) 181, 415, 424, 460
TseI GCWGC 6 cut(s) 46, 330, 336, 379, 688, 691
Tsp45I GTSAC 4 cut(s) 181, 415, 424, 460
TspDTI ATGAA 1 cut(s) 29
TspGWI ACGGA 1 cut(s) 762
TspMI CCCGGG 1 cut(s) 285
TspRI CASTG 1 cut(s) 462
Van91I CCANNNNNTGG 1 cut(s) 577
VpaK11BI GGWCC 3 cut(s) 228, 596, 614
XceI RCATGY 1 cut(s) 817
XcmI CCANNNNNNNNNTGG 1 cut(s) 137
XmaI CCCGGG 1 cut(s) 285
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.