Rh7BG296100

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_samantha
Chr7B
OG0014937
Physical Location & Seq
Forward (+)
27949617 .. 27950552
936 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7BG296100.1

Sequence Viewer

Length: 936 bp
ATGGCGGGGTACAATGGCAGATCAGAATATATGCAACTCTTCCGTCCCGAACTGCACCTCCAGAGACCACCGTCACCGTCCATCTCTGTTCCGCCGCAGCAACAACAACCTCAACCTTCTTCCGATTCTCAACAGCAAGAAGACTCGCCCGAAGGAGACCAAGAACACAAGATCGAGTCCGACACCGCCGCCACAAGTTCCGGAGGCGGCGGTGGCGGTAGCGGTAGCGGTGGGGGTTCAGGACGTCGTCCGCGGGGGCGTCCGGCGGGGTCAAAGAACAAGCCGAAGCCGCCTATCATCGTGACGCGCGACAGCCCCAACGCGCTCCGCTCGCACGTGCTGGAGGTCTCTGCCGGGACAGACGTGGTGGAGAGCGTGTCCCACTACGCGAGGCGGAGGGGGAGGGGAGTGTGCGTGCTCAGCGGCACCGGCACCGTCGCTAACGTCACCCTGCGTCAGCCGGCGGCGCCCGTGGGGAGCGTGGTCACTCTCCACGGGAGGTTCGAGATACTTTCGCTCTCGGGGACGGTGCTTCCGCCTCCGGCCCCGCCGGGCGCCGGGGGACTGTCGATTTTCCTGGCGGGCGGGCAGGGTCAGGTGGTTGGGGGCAGCGTGGTGGGCCCACTGCTGGCTTCGGGGCCGGTTGTTTTGATGGCTGCGTCGTTTGCGAATGCGGTGTTTGAGAGGCTACCATTGGAGGAGGAAGAGGCAGCGGGCGGTGGTGGGTTACAAGTCCAGCAACCGACGGCTTCACAATCTTCAGGAGTGACAGGTGGTGGTGGTGGAGGACAACATCAGCAGCTTGGTGAGGGAAGCAGCGGCGGTCTCTTTAATCTGGGAGGGAACATGGGGGCGGGGAGCTATCCGGCGTTTTCGGGAACTGATTTGTACGGGTGGGGTAGCGGCGGAGCTACTCATCCGCGGCCTCCGTTTTAG
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

311

Amino Acids

31.22

Weight (kDa)

6.66

Isoelectric Point (pI)

72.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 110 - 223 4.9e-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
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Orthologous Genes (Group: OG0014937)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G20900 AT1G76500
fragaria_vesca FvH4_5g26230
malus_domestica MD06G1003000.v1.1
prunus_persica Prupe.5G004600_v2.0.a1
pyrus_communis pycom06g00310
rosa_chinensis RchiOBHm_Chr7g0216901
rosa_laevigata RLG00000002528
rosa_multiflora Rmu_sc0000854.1_g000020
rosa_roxburghii Rroxscaffold_3G00242760
rosa_rugosa Rorug07G0164300
rosa_samantha Rh7AG304600 Rh7BG296100 Rh7CG323000 Rh7DG304600
rosa_wichuraiana Rw7G025860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 247
AccB1I GGYRCC 4 cut(s) 425, 431, 466, 554
AccBSI CCGCTC 1 cut(s) 330
AccII CGCG 6 cut(s) 253, 307, 309, 323, 389, 922
AccIII TCCGGA 1 cut(s) 200
AcuI CTGAAG 1 cut(s) 744
AcvI CACGTG 1 cut(s) 337
AcyI GRCGYC 4 cut(s) 244, 259, 467, 555
AfaI GTAC 2 cut(s) 11, 890
AfiI CCNNNNNNNGG 2 cut(s) 557, 628
AjiI CACGTC 1 cut(s) 364
AjnI CCWGG 1 cut(s) 576
AloI GAACNNNNNNTCC 2 cut(s) 42, 74
AluBI AGCT 3 cut(s) 802, 861, 911
AluI AGCT 3 cut(s) 802, 861, 911
Alw21I GWGCWC 1 cut(s) 420
Alw26I GTCTC 4 cut(s) 58, 150, 352, 830
Ama87I CYCGRG 1 cut(s) 520
Aor13HI TCCGGA 1 cut(s) 200
AoxI GGCC 4 cut(s) 543, 619, 638, 923
ApaI GGGCCC 1 cut(s) 623
ApeKI GCWGC 6 cut(s) 97, 609, 656, 710, 799, 816
AspLEI GCGC 4 cut(s) 309, 325, 469, 557
AspS9I GGNCC 4 cut(s) 544, 619, 620, 638
AsuC2I CCSGG 3 cut(s) 355, 552, 559
AsuHPI GGTGA 3 cut(s) 66, 439, 818
AvaI CYCGRG 1 cut(s) 520
BaeGI GKGCMC 1 cut(s) 623
BanI GGYRCC 4 cut(s) 425, 431, 466, 554
BanII GRGCYC 1 cut(s) 623
BbrPI CACGTG 1 cut(s) 337
BbsI GAAGAC 1 cut(s) 147
Bbv12I GWGCWC 1 cut(s) 420
BbvI GCAGC 6 cut(s) 109, 621, 643, 722, 811, 828
BccI CCATC 2 cut(s) 89, 646
BceAI ACGGC 1 cut(s) 762
BciT130I CCWGG 1 cut(s) 578
BcnI CCSGG 3 cut(s) 355, 552, 559
BcoDI GTCTC 4 cut(s) 58, 150, 352, 830
BfoI RGCGCY 2 cut(s) 470, 558
BlpI GCTNAGC 1 cut(s) 419
Bme1390I CCNGG 4 cut(s) 355, 552, 559, 578
BmeT110I CYCGRG 1 cut(s) 520
BmgBI CACGTC 1 cut(s) 364
BmgT120I GGNCC 4 cut(s) 544, 619, 620, 638
BmiI GGNNCC 7 cut(s) 427, 433, 468, 546, 556, 621, 639
BmrFI CCNGG 4 cut(s) 355, 552, 559, 578
BoxI GACNNNNGTC 1 cut(s) 70
BpiI GAAGAC 1 cut(s) 147
BpmI CTGGAG 2 cut(s) 44, 362
Bpu1102I GCTNAGC 1 cut(s) 419
BpuMI CCSGG 3 cut(s) 355, 552, 559
BsaAI YACGTR 1 cut(s) 337
BsaHI GRCGYC 4 cut(s) 244, 259, 467, 555
BsaI GGTCTC 4 cut(s) 58, 150, 352, 830
BsaJI CCNNGG 5 cut(s) 251, 471, 493, 558, 920
BsaWI WCCGGW 1 cut(s) 200
BsaXI ACNNNNNCTCC 6 cut(s) 42, 72, 362, 392, 399, 429
Bsc4I CCNNNNNNNGG 2 cut(s) 557, 628
Bse118I RCCGGY 3 cut(s) 428, 460, 640
BseAI TCCGGA 1 cut(s) 200
BseBI CCWGG 1 cut(s) 578
BseDI CCNNGG 5 cut(s) 251, 471, 493, 558, 920
BseGI GGATG 1 cut(s) 916
BseLI CCNNNNNNNGG 2 cut(s) 557, 628
BseMII CTCAG 1 cut(s) 433
BseRI GAGGAG 1 cut(s) 713
BseSI GKGCMC 1 cut(s) 623
BseXI GCAGC 6 cut(s) 109, 621, 643, 722, 811, 828
BsgI GTGCAG 1 cut(s) 38
Bsh1236I CGCG 6 cut(s) 253, 307, 309, 323, 389, 922
BshFI GGCC 4 cut(s) 545, 621, 640, 925
BshNI GGYRCC 4 cut(s) 425, 431, 466, 554
BsiHKAI GWGCWC 1 cut(s) 420
BsiHKCI CYCGRG 1 cut(s) 520
BslFI GGGAC 5 cut(s) 30, 364, 370, 538, 576
BslI CCNNNNNNNGG 2 cut(s) 557, 628
BsmAI GTCTC 4 cut(s) 58, 150, 352, 830
BsmFI GGGAC 5 cut(s) 30, 364, 370, 538, 576
BsmI GAATGC 1 cut(s) 676
BsnI GGCC 4 cut(s) 545, 621, 640, 925
Bso31I GGTCTC 4 cut(s) 58, 150, 352, 830
BsoBI CYCGRG 1 cut(s) 520
Bsp120I GGGCCC 1 cut(s) 619
Bsp1286I GDGCHC 2 cut(s) 420, 623
Bsp13I TCCGGA 1 cut(s) 200
Bsp143I GATC 2 cut(s) 20, 171
Bsp1720I GCTNAGC 1 cut(s) 419
BspANI GGCC 4 cut(s) 545, 621, 640, 925
BspCNI CTCAG 1 cut(s) 432
BspEI TCCGGA 1 cut(s) 200
BspFNI CGCG 6 cut(s) 253, 307, 309, 323, 389, 922
BspLI GGNNCC 7 cut(s) 427, 433, 468, 546, 556, 621, 639
BspT107I GGYRCC 4 cut(s) 425, 431, 466, 554
BspTNI GGTCTC 4 cut(s) 58, 150, 352, 830
BsrBI CCGCTC 1 cut(s) 330
BsrFI RCCGGY 3 cut(s) 428, 460, 640
BssAI RCCGGY 3 cut(s) 428, 460, 640
BssECI CCNNGG 5 cut(s) 251, 471, 493, 558, 920
BssMI GATC 2 cut(s) 20, 171
BssNI GRCGYC 4 cut(s) 244, 259, 467, 555
Bst2UI CCWGG 1 cut(s) 578
Bst4CI ACNGT 5 cut(s) 72, 78, 436, 529, 567
Bst6I CTCTTC 2 cut(s) 44, 699
BstACI GRCGYC 4 cut(s) 244, 259, 467, 555
BstBAI YACGTR 1 cut(s) 337
BstC8I GCNNGC 7 cut(s) 332, 416, 462, 583, 587, 630, 715
BstDEI CTNAG 1 cut(s) 419
BstDSI CCRYGG 4 cut(s) 251, 471, 493, 920
BstF5I GGATG 1 cut(s) 916
BstFNI CGCG 6 cut(s) 253, 307, 309, 323, 389, 922
BstH2I RGCGCY 2 cut(s) 470, 558
BstHHI GCGC 4 cut(s) 309, 325, 469, 557
BstKTI GATC 2 cut(s) 23, 174
BstMAI GTCTC 4 cut(s) 58, 150, 352, 830
BstMBI GATC 2 cut(s) 20, 171
BstMWI GCNNNNNNNGC 8 cut(s) 213, 289, 331, 420, 429, 466, 618, 665
BstNI CCWGG 1 cut(s) 578
BstPAI GACNNNNGTC 1 cut(s) 70
BstSCI CCNGG 4 cut(s) 353, 550, 557, 576
BstSLI GKGCMC 1 cut(s) 623
BstUI CGCG 6 cut(s) 253, 307, 309, 323, 389, 922
BstV1I GCAGC 6 cut(s) 109, 621, 643, 722, 811, 828
BstV2I GAAGAC 1 cut(s) 147
BsuRI GGCC 4 cut(s) 545, 621, 640, 925
BtgI CCRYGG 4 cut(s) 251, 471, 493, 920
BtrI CACGTC 1 cut(s) 364
BtsCI GGATG 1 cut(s) 916
BtsI GCAGTG 1 cut(s) 623
BtsIMutI CAGTG 1 cut(s) 623
Cac8I GCNNGC 7 cut(s) 332, 416, 462, 583, 587, 630, 715
CfoI GCGC 4 cut(s) 309, 325, 469, 557
Cfr10I RCCGGY 3 cut(s) 428, 460, 640
Cfr13I GGNCC 4 cut(s) 544, 619, 620, 638
Cfr42I CCGCGG 2 cut(s) 254, 923
CseI GACGC 4 cut(s) 248, 313, 443, 648
Csp6I GTAC 2 cut(s) 10, 889
CviAII CATG 1 cut(s) 847
CviQI GTAC 2 cut(s) 10, 889
DdeI CTNAG 1 cut(s) 419
DinI GGCGCC 2 cut(s) 468, 556
DpnI GATC 2 cut(s) 22, 173
DpnII GATC 2 cut(s) 20, 171
Eam1104I CTCTTC 2 cut(s) 44, 699
EarI CTCTTC 2 cut(s) 44, 699
EciI GGCGGA 4 cut(s) 81, 409, 525, 921
Eco24I GRGCYC 1 cut(s) 623
Eco31I GGTCTC 4 cut(s) 58, 150, 352, 830
Eco57I CTGAAG 1 cut(s) 744
Eco72I CACGTG 1 cut(s) 337
Eco88I CYCGRG 1 cut(s) 520
EcoRII CCWGG 1 cut(s) 576
EcoT38I GRGCYC 1 cut(s) 623
EgeI GGCGCC 2 cut(s) 468, 556
EheI GGCGCC 2 cut(s) 468, 556
FaeI CATG 1 cut(s) 850
FaiI YATR 3 cut(s) 30, 32, 848
FaqI GGGAC 5 cut(s) 30, 364, 370, 538, 576
FatI CATG 1 cut(s) 846
FauI CCCGC 7 cut(s) 246, 259, 555, 574, 578, 706, 847
FokI GGATG 1 cut(s) 903
FriOI GRGCYC 1 cut(s) 623
GlaI GCGC 4 cut(s) 308, 324, 468, 556
GsuI CTGGAG 2 cut(s) 44, 362
HaeII RGCGCY 2 cut(s) 470, 558
HaeIII GGCC 4 cut(s) 545, 621, 640, 925
HgaI GACGC 4 cut(s) 248, 313, 443, 648
HhaI GCGC 4 cut(s) 309, 325, 469, 557
Hin1I GRCGYC 4 cut(s) 244, 259, 467, 555
Hin1II CATG 1 cut(s) 850
Hin6I GCGC 4 cut(s) 307, 323, 467, 555
HinP1I GCGC 4 cut(s) 307, 323, 467, 555
HinfI GANTC 3 cut(s) 125, 143, 176
HphI GGTGA 3 cut(s) 66, 439, 818
Hpy188I TCNGA 3 cut(s) 25, 124, 181
Hpy188III TCNNGA 8 cut(s) 47, 61, 201, 240, 301, 505, 762, 876
Hpy99I CGWCG 4 cut(s) 249, 440, 664, 748
HpyAV CCTTC 2 cut(s) 126, 146
HpyCH4III ACNGT 5 cut(s) 72, 78, 436, 529, 567
HpyCH4IV ACGT 4 cut(s) 244, 336, 363, 444
HpyCH4V TGCA 2 cut(s) 34, 55
HpyF10VI GCNNNNNNNGC 8 cut(s) 213, 289, 331, 420, 429, 466, 618, 665
HpyF3I CTNAG 1 cut(s) 419
HpySE526I ACGT 4 cut(s) 244, 336, 363, 444
Hsp92I GRCGYC 4 cut(s) 244, 259, 467, 555
Hsp92II CATG 1 cut(s) 850
HspAI GCGC 4 cut(s) 307, 323, 467, 555
KasI GGCGCC 2 cut(s) 466, 554
Kpn2I TCCGGA 1 cut(s) 200
KroI GCCGGC 1 cut(s) 460
KroNI GCCGGC 1 cut(s) 462
KspI CCGCGG 2 cut(s) 254, 923
Kzo9I GATC 2 cut(s) 20, 171
LmnI GCTCC 4 cut(s) 330, 477, 858, 908
Lsp1109I GCAGC 6 cut(s) 109, 621, 643, 722, 811, 828
MaeII ACGT 4 cut(s) 244, 336, 363, 444
MaeIII GTNAC 6 cut(s) 72, 301, 445, 484, 726, 766
MalI GATC 2 cut(s) 22, 173
MbiI CCGCTC 1 cut(s) 330
MboI GATC 2 cut(s) 20, 171
MboII GAAGA 5 cut(s) 31, 111, 152, 716, 750
MhlI GDGCHC 2 cut(s) 420, 623
Mly113I GGCGCC 2 cut(s) 467, 555
MlyI GAGTC 2 cut(s) 137, 185
MmeI TCCRAC 1 cut(s) 204
MroI TCCGGA 1 cut(s) 200
MroNI GCCGGC 1 cut(s) 460
MseI TTAA 1 cut(s) 831
MspA1I CMGCKG 5 cut(s) 253, 423, 713, 819, 922
MspR9I CCNGG 4 cut(s) 355, 552, 559, 578
Mva1269I GAATGC 1 cut(s) 676
MvaI CCWGG 1 cut(s) 578
MvnI CGCG 6 cut(s) 253, 307, 309, 323, 389, 922
MwoI GCNNNNNNNGC 8 cut(s) 213, 289, 331, 420, 429, 466, 618, 665
NaeI GCCGGC 1 cut(s) 462
NarI GGCGCC 2 cut(s) 467, 555
NciI CCSGG 3 cut(s) 355, 552, 559
NdeII GATC 2 cut(s) 20, 171
NgoMIV GCCGGC 1 cut(s) 460
NlaIII CATG 1 cut(s) 850
NlaIV GGNNCC 7 cut(s) 427, 433, 468, 546, 556, 621, 639
NmuCI GTSAC 5 cut(s) 72, 301, 445, 484, 766
PcsI WCGNNNNNNNCGW 2 cut(s) 306, 501
PctI GAATGC 1 cut(s) 676
PdiI GCCGGC 1 cut(s) 462
PfeI GAWTC 1 cut(s) 125
PflFI GACNNNGTC 1 cut(s) 246
PleI GAGTC 2 cut(s) 137, 184
PluTI GGCGCC 2 cut(s) 470, 558
PmaCI CACGTG 1 cut(s) 337
PmlI CACGTG 1 cut(s) 337
PpsI GAGTC 2 cut(s) 137, 184
Ppu21I YACGTR 1 cut(s) 337
PshAI GACNNNNGTC 1 cut(s) 70
Psp6I CCWGG 1 cut(s) 576
PspCI CACGTG 1 cut(s) 337
PspGI CCWGG 1 cut(s) 576
PspN4I GGNNCC 7 cut(s) 427, 433, 468, 546, 556, 621, 639
PspOMI GGGCCC 1 cut(s) 619
PspPI GGNCC 4 cut(s) 544, 619, 620, 638
PsyI GACNNNGTC 1 cut(s) 246
RsaI GTAC 2 cut(s) 11, 890
RsaNI GTAC 2 cut(s) 10, 889
SacII CCGCGG 2 cut(s) 254, 923
SaqAI TTAA 1 cut(s) 831
Sau3AI GATC 2 cut(s) 20, 171
Sau96I GGNCC 4 cut(s) 544, 619, 620, 638
SchI GAGTC 2 cut(s) 137, 185
ScrFI CCNGG 4 cut(s) 355, 552, 559, 578
SduI GDGCHC 2 cut(s) 420, 623
SfoI GGCGCC 2 cut(s) 468, 556
Sfr303I CCGCGG 2 cut(s) 254, 923
SgrBI CCGCGG 2 cut(s) 254, 923
SspDI GGCGCC 2 cut(s) 466, 554
StyD4I CCNGG 4 cut(s) 353, 550, 557, 576
TaaI ACNGT 5 cut(s) 72, 78, 436, 529, 567
TaiI ACGT 4 cut(s) 247, 339, 366, 447
TaqI TCGA 3 cut(s) 174, 504, 569
TauI GCSGC 9 cut(s) 97, 191, 210, 292, 426, 467, 822, 906, 925
TfiI GAWTC 1 cut(s) 125
Tru1I TTAA 1 cut(s) 831
Tru9I TTAA 1 cut(s) 831
TscAI CASTG 1 cut(s) 630
TseFI GTSAC 5 cut(s) 72, 301, 445, 484, 766
TseI GCWGC 6 cut(s) 97, 609, 656, 710, 799, 816
Tsp45I GTSAC 5 cut(s) 72, 301, 445, 484, 766
TspGWI ACGGA 2 cut(s) 32, 918
TspRI CASTG 1 cut(s) 630
Tth111I GACNNNGTC 1 cut(s) 246
ZraI GACGTC 1 cut(s) 245
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.