RchiOBHm_Chr7g0216901

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_chinensis
7
OG0014937
Physical Location & Seq
Forward (+)
34701797 .. 34703704
1908 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ19410

Sequence Viewer

Length: 885 bp
ATGGCGGGGTACAATGGCAGATCAGAATATATGCAACTCTTCCGTCCCGAACTGCACCTCCAGAGACCACCGTCACCGTCCATCTCTGTTCCGCCGCAGCAACAACAACCTCAACCTTCTTCCGATTCTCAACAGCAAGAAGACTCGCCCGAAGGAGACCAAGAACACAAGATCGAGTCCGACACCGCCGCCACAAGTTCCGGAGGCGGCGGTGGCGGTAGCGGTGGGGGTTCAGGACGTCGTCCGCGGGGGCGTCCGGCGGGGTCAAAGAACAAGCCGAAGCCGCCGATCATTGTGACGCGCGACAGCCCCAACGCGCTCCGCTCGCACGTGCTGGAGGTTTCTGCCGGGACAGACGTGGTGGAGAGCGTGTCCCACTACGCGAGGCGGAGGGGAGGGGAGTCCGGCGGCGCCCGTGGGGAGCGTGGTCACTCTCCACGGGAGGTTCGAAATACTTTCGCTCTCGGGGACGGTGCTTCCGCCTCCGGCCCCCCGGGCTCCGGGGGACTGTCGATTTTCCTGGCGGGCGGGCAGGGTCAGGTGGTTGGGGGCAGCGTGGTGGGCCCACTACTGGCTTCGGGGCCGGTTGTTTTGATGGCTGCGTCGTTTGCGAATGCGGTGTTTGAGAGGCTGCCATTGGAGGAGGAAGAGGCAGCGGGCGGTGGTGGGTTACAAGTCCAGCAACCGACGGCTTCACAATCTTCAGGAGTGACAGGTGGTGGTGGTGGTGGTGGAGGACAACATCAGCAGCTTGGTGAGGGAAGCAGCGGCGGTCTCTTTAATCTGGGAGGGAACATGGGGGCGGGGAGCTATCCGGCGTTTTCGGGAACTGATTTGTACGGGTGGGGTAGCGGCGGAGCTACTCATCCGCGGCCTCCGTTTTAG
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

294

Amino Acids

29.46

Weight (kDa)

6.17

Isoelectric Point (pI)

73.74

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: 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) 241
AccB1I GGYRCC 1 cut(s) 410
AccBSI CCGCTC 1 cut(s) 324
AccII CGCG 6 cut(s) 247, 301, 303, 317, 383, 871
AccIII TCCGGA 1 cut(s) 200
AcuI CTGAAG 1 cut(s) 687
AcvI CACGTG 1 cut(s) 331
AcyI GRCGYC 3 cut(s) 238, 253, 411
AfaI GTAC 2 cut(s) 11, 839
AfiI CCNNNNNNNGG 2 cut(s) 500, 571
AjiI CACGTC 1 cut(s) 358
AjnI CCWGG 1 cut(s) 519
AloI GAACNNNNNNTCC 2 cut(s) 42, 74
AluBI AGCT 3 cut(s) 751, 810, 860
AluI AGCT 3 cut(s) 751, 810, 860
Alw26I GTCTC 3 cut(s) 58, 150, 779
Ama87I CYCGRG 2 cut(s) 464, 493
Aor13HI TCCGGA 1 cut(s) 200
AoxI GGCC 4 cut(s) 487, 562, 581, 872
ApaI GGGCCC 1 cut(s) 566
ApeKI GCWGC 7 cut(s) 97, 552, 599, 631, 653, 748, 765
AspLEI GCGC 3 cut(s) 303, 319, 413
AspS9I GGNCC 4 cut(s) 488, 562, 563, 581
AsuC2I CCSGG 4 cut(s) 349, 494, 495, 502
AsuHPI GGTGA 2 cut(s) 66, 767
AsuII TTCGAA 1 cut(s) 448
AvaI CYCGRG 2 cut(s) 464, 493
BaeGI GKGCMC 1 cut(s) 566
BanI GGYRCC 1 cut(s) 410
BanII GRGCYC 2 cut(s) 500, 566
BbrPI CACGTG 1 cut(s) 331
BbsI GAAGAC 1 cut(s) 147
BbvI GCAGC 7 cut(s) 109, 564, 586, 618, 665, 760, 777
BccI CCATC 2 cut(s) 89, 589
BceAI ACGGC 1 cut(s) 705
BciT130I CCWGG 1 cut(s) 521
BcnI CCSGG 4 cut(s) 349, 494, 495, 502
BcoDI GTCTC 3 cut(s) 58, 150, 779
BfoI RGCGCY 1 cut(s) 414
BglI GCCNNNNNGGC 1 cut(s) 495
Bme1390I CCNGG 5 cut(s) 349, 494, 495, 502, 521
BmeT110I CYCGRG 2 cut(s) 464, 493
BmgBI CACGTC 1 cut(s) 358
BmgT120I GGNCC 4 cut(s) 488, 562, 563, 581
BmiI GGNNCC 5 cut(s) 412, 490, 499, 564, 582
BmrFI CCNGG 5 cut(s) 349, 494, 495, 502, 521
BoxI GACNNNNGTC 1 cut(s) 70
BpiI GAAGAC 1 cut(s) 147
BpmI CTGGAG 2 cut(s) 44, 356
Bpu14I TTCGAA 1 cut(s) 448
BpuMI CCSGG 4 cut(s) 349, 494, 495, 502
BsaAI YACGTR 1 cut(s) 331
BsaHI GRCGYC 3 cut(s) 238, 253, 411
BsaI GGTCTC 3 cut(s) 58, 150, 779
BsaJI CCNNGG 7 cut(s) 245, 415, 437, 492, 493, 501, 869
BsaWI WCCGGW 1 cut(s) 200
BsaXI ACNNNNNCTCC 4 cut(s) 42, 72, 356, 386
Bsc4I CCNNNNNNNGG 2 cut(s) 500, 571
Bse118I RCCGGY 1 cut(s) 583
Bse1I ACTGG 1 cut(s) 576
BseAI TCCGGA 1 cut(s) 200
BseBI CCWGG 1 cut(s) 521
BseDI CCNNGG 7 cut(s) 245, 415, 437, 492, 493, 501, 869
BseGI GGATG 1 cut(s) 865
BseLI CCNNNNNNNGG 2 cut(s) 500, 571
BseNI ACTGG 1 cut(s) 576
BseRI GAGGAG 1 cut(s) 656
BseSI GKGCMC 1 cut(s) 566
BseXI GCAGC 7 cut(s) 109, 564, 586, 618, 665, 760, 777
BsgI GTGCAG 1 cut(s) 38
Bsh1236I CGCG 6 cut(s) 247, 301, 303, 317, 383, 871
BshFI GGCC 4 cut(s) 489, 564, 583, 874
BshNI GGYRCC 1 cut(s) 410
BsiHKCI CYCGRG 2 cut(s) 464, 493
BsiSI CCGG 9 cut(s) 201, 257, 348, 405, 486, 494, 501, 584, 815
BslFI GGGAC 5 cut(s) 30, 358, 364, 482, 519
BslI CCNNNNNNNGG 2 cut(s) 500, 571
BsmAI GTCTC 3 cut(s) 58, 150, 779
BsmFI GGGAC 5 cut(s) 30, 358, 364, 482, 519
BsmI GAATGC 1 cut(s) 619
BsnI GGCC 4 cut(s) 489, 564, 583, 874
Bso31I GGTCTC 3 cut(s) 58, 150, 779
BsoBI CYCGRG 2 cut(s) 464, 493
Bsp119I TTCGAA 1 cut(s) 448
Bsp120I GGGCCC 1 cut(s) 562
Bsp1286I GDGCHC 2 cut(s) 500, 566
Bsp13I TCCGGA 1 cut(s) 200
Bsp143I GATC 3 cut(s) 20, 171, 288
BspANI GGCC 4 cut(s) 489, 564, 583, 874
BspEI TCCGGA 1 cut(s) 200
BspFNI CGCG 6 cut(s) 247, 301, 303, 317, 383, 871
BspLI GGNNCC 5 cut(s) 412, 490, 499, 564, 582
BspT104I TTCGAA 1 cut(s) 448
BspT107I GGYRCC 1 cut(s) 410
BspTNI GGTCTC 3 cut(s) 58, 150, 779
BsrBI CCGCTC 1 cut(s) 324
BsrFI RCCGGY 1 cut(s) 583
BsrI ACTGG 1 cut(s) 576
BssAI RCCGGY 1 cut(s) 583
BssECI CCNNGG 7 cut(s) 245, 415, 437, 492, 493, 501, 869
BssMI GATC 3 cut(s) 20, 171, 288
BssNI GRCGYC 3 cut(s) 238, 253, 411
Bst2UI CCWGG 1 cut(s) 521
Bst4CI ACNGT 4 cut(s) 72, 78, 473, 510
Bst6I CTCTTC 2 cut(s) 44, 642
BstACI GRCGYC 3 cut(s) 238, 253, 411
BstBAI YACGTR 1 cut(s) 331
BstBI TTCGAA 1 cut(s) 448
BstC8I GCNNGC 4 cut(s) 326, 526, 530, 658
BstDSI CCRYGG 4 cut(s) 245, 415, 437, 869
BstF5I GGATG 1 cut(s) 865
BstFNI CGCG 6 cut(s) 247, 301, 303, 317, 383, 871
BstH2I RGCGCY 1 cut(s) 414
BstHHI GCGC 3 cut(s) 303, 319, 413
BstKTI GATC 3 cut(s) 23, 174, 291
BstMAI GTCTC 3 cut(s) 58, 150, 779
BstMBI GATC 3 cut(s) 20, 171, 288
BstMWI GCNNNNNNNGC 6 cut(s) 213, 283, 325, 495, 561, 608
BstNI CCWGG 1 cut(s) 521
BstPAI GACNNNNGTC 1 cut(s) 70
BstSCI CCNGG 5 cut(s) 347, 492, 493, 500, 519
BstSLI GKGCMC 1 cut(s) 566
BstUI CGCG 6 cut(s) 247, 301, 303, 317, 383, 871
BstV1I GCAGC 7 cut(s) 109, 564, 586, 618, 665, 760, 777
BstV2I GAAGAC 1 cut(s) 147
BsuRI GGCC 4 cut(s) 489, 564, 583, 874
BtgI CCRYGG 4 cut(s) 245, 415, 437, 869
BtrI CACGTC 1 cut(s) 358
BtsCI GGATG 1 cut(s) 865
Cac8I GCNNGC 4 cut(s) 326, 526, 530, 658
CfoI GCGC 3 cut(s) 303, 319, 413
Cfr10I RCCGGY 1 cut(s) 583
Cfr13I GGNCC 4 cut(s) 488, 562, 563, 581
Cfr42I CCGCGG 2 cut(s) 248, 872
Cfr9I CCCGGG 1 cut(s) 493
CseI GACGC 3 cut(s) 242, 307, 591
Csp6I GTAC 2 cut(s) 10, 838
CviAII CATG 1 cut(s) 796
CviQI GTAC 2 cut(s) 10, 838
DinI GGCGCC 1 cut(s) 412
DpnI GATC 3 cut(s) 22, 173, 290
DpnII GATC 3 cut(s) 20, 171, 288
Eam1104I CTCTTC 2 cut(s) 44, 642
EarI CTCTTC 2 cut(s) 44, 642
EciI GGCGGA 4 cut(s) 81, 403, 469, 870
Eco24I GRGCYC 2 cut(s) 500, 566
Eco31I GGTCTC 3 cut(s) 58, 150, 779
Eco57I CTGAAG 1 cut(s) 687
Eco72I CACGTG 1 cut(s) 331
Eco88I CYCGRG 2 cut(s) 464, 493
EcoRII CCWGG 1 cut(s) 519
EcoT38I GRGCYC 2 cut(s) 500, 566
EgeI GGCGCC 1 cut(s) 412
EheI GGCGCC 1 cut(s) 412
FaeI CATG 1 cut(s) 799
FaiI YATR 3 cut(s) 30, 32, 797
FaqI GGGAC 5 cut(s) 30, 358, 364, 482, 519
FatI CATG 1 cut(s) 795
FauI CCCGC 6 cut(s) 240, 253, 517, 521, 649, 796
FokI GGATG 1 cut(s) 852
FriOI GRGCYC 2 cut(s) 500, 566
GlaI GCGC 3 cut(s) 302, 318, 412
GsuI CTGGAG 2 cut(s) 44, 356
HaeII RGCGCY 1 cut(s) 414
HaeIII GGCC 4 cut(s) 489, 564, 583, 874
HapII CCGG 9 cut(s) 201, 257, 348, 405, 486, 494, 501, 584, 815
HgaI GACGC 3 cut(s) 242, 307, 591
HhaI GCGC 3 cut(s) 303, 319, 413
Hin1I GRCGYC 3 cut(s) 238, 253, 411
Hin1II CATG 1 cut(s) 799
Hin6I GCGC 3 cut(s) 301, 317, 411
HinP1I GCGC 3 cut(s) 301, 317, 411
HinfI GANTC 4 cut(s) 125, 143, 176, 401
HpaII CCGG 9 cut(s) 201, 257, 348, 405, 486, 494, 501, 584, 815
HphI GGTGA 2 cut(s) 66, 767
Hpy188I TCNGA 3 cut(s) 25, 124, 181
Hpy188III TCNNGA 6 cut(s) 47, 61, 201, 234, 705, 825
Hpy99I CGWCG 3 cut(s) 243, 607, 691
HpyAV CCTTC 2 cut(s) 126, 146
HpyCH4III ACNGT 4 cut(s) 72, 78, 473, 510
HpyCH4IV ACGT 3 cut(s) 238, 330, 357
HpyCH4V TGCA 2 cut(s) 34, 55
HpyF10VI GCNNNNNNNGC 6 cut(s) 213, 283, 325, 495, 561, 608
HpySE526I ACGT 3 cut(s) 238, 330, 357
Hsp92I GRCGYC 3 cut(s) 238, 253, 411
Hsp92II CATG 1 cut(s) 799
HspAI GCGC 3 cut(s) 301, 317, 411
KasI GGCGCC 1 cut(s) 410
Kpn2I TCCGGA 1 cut(s) 200
KspI CCGCGG 2 cut(s) 248, 872
Kzo9I GATC 3 cut(s) 20, 171, 288
LmnI GCTCC 5 cut(s) 324, 421, 503, 807, 857
Lsp1109I GCAGC 7 cut(s) 109, 564, 586, 618, 665, 760, 777
MaeII ACGT 3 cut(s) 238, 330, 357
MaeIII GTNAC 5 cut(s) 72, 295, 428, 669, 709
MalI GATC 3 cut(s) 22, 173, 290
MbiI CCGCTC 1 cut(s) 324
MboI GATC 3 cut(s) 20, 171, 288
MboII GAAGA 5 cut(s) 31, 111, 152, 659, 693
MhlI GDGCHC 2 cut(s) 500, 566
Mly113I GGCGCC 1 cut(s) 411
MlyI GAGTC 3 cut(s) 137, 185, 410
MmeI TCCRAC 1 cut(s) 204
MroI TCCGGA 1 cut(s) 200
MseI TTAA 1 cut(s) 780
MspA1I CMGCKG 4 cut(s) 247, 656, 768, 871
MspI CCGG 9 cut(s) 201, 257, 348, 405, 486, 494, 501, 584, 815
MspR9I CCNGG 5 cut(s) 349, 494, 495, 502, 521
Mva1269I GAATGC 1 cut(s) 619
MvaI CCWGG 1 cut(s) 521
MvnI CGCG 6 cut(s) 247, 301, 303, 317, 383, 871
MwoI GCNNNNNNNGC 6 cut(s) 213, 283, 325, 495, 561, 608
NarI GGCGCC 1 cut(s) 411
NciI CCSGG 4 cut(s) 349, 494, 495, 502
NdeII GATC 3 cut(s) 20, 171, 288
NlaIII CATG 1 cut(s) 799
NlaIV GGNNCC 5 cut(s) 412, 490, 499, 564, 582
NmuCI GTSAC 4 cut(s) 72, 295, 428, 709
NspV TTCGAA 1 cut(s) 448
PcsI WCGNNNNNNNCGW 1 cut(s) 445
PctI GAATGC 1 cut(s) 619
PfeI GAWTC 1 cut(s) 125
PflFI GACNNNGTC 1 cut(s) 240
PleI GAGTC 3 cut(s) 137, 184, 409
PluTI GGCGCC 1 cut(s) 414
PmaCI CACGTG 1 cut(s) 331
PmlI CACGTG 1 cut(s) 331
PpsI GAGTC 3 cut(s) 137, 184, 409
Ppu21I YACGTR 1 cut(s) 331
PshAI GACNNNNGTC 1 cut(s) 70
Psp6I CCWGG 1 cut(s) 519
PspCI CACGTG 1 cut(s) 331
PspGI CCWGG 1 cut(s) 519
PspN4I GGNNCC 5 cut(s) 412, 490, 499, 564, 582
PspOMI GGGCCC 1 cut(s) 562
PspPI GGNCC 4 cut(s) 488, 562, 563, 581
PsyI GACNNNGTC 1 cut(s) 240
RsaI GTAC 2 cut(s) 11, 839
RsaNI GTAC 2 cut(s) 10, 838
SacII CCGCGG 2 cut(s) 248, 872
SaqAI TTAA 1 cut(s) 780
Sau3AI GATC 3 cut(s) 20, 171, 288
Sau96I GGNCC 4 cut(s) 488, 562, 563, 581
SchI GAGTC 3 cut(s) 137, 185, 410
ScrFI CCNGG 5 cut(s) 349, 494, 495, 502, 521
SduI GDGCHC 2 cut(s) 500, 566
SfoI GGCGCC 1 cut(s) 412
Sfr303I CCGCGG 2 cut(s) 248, 872
SfuI TTCGAA 1 cut(s) 448
SgrBI CCGCGG 2 cut(s) 248, 872
SmaI CCCGGG 1 cut(s) 495
SspDI GGCGCC 1 cut(s) 410
StyD4I CCNGG 5 cut(s) 347, 492, 493, 500, 519
TaaI ACNGT 4 cut(s) 72, 78, 473, 510
TaiI ACGT 3 cut(s) 241, 333, 360
TaqI TCGA 3 cut(s) 174, 448, 512
TauI GCSGC 8 cut(s) 97, 191, 210, 286, 411, 771, 855, 874
TfiI GAWTC 1 cut(s) 125
Tru1I TTAA 1 cut(s) 780
Tru9I TTAA 1 cut(s) 780
TseFI GTSAC 4 cut(s) 72, 295, 428, 709
TseI GCWGC 7 cut(s) 97, 552, 599, 631, 653, 748, 765
Tsp45I GTSAC 4 cut(s) 72, 295, 428, 709
TspGWI ACGGA 2 cut(s) 32, 867
TspMI CCCGGG 1 cut(s) 493
Tth111I GACNNNGTC 1 cut(s) 240
XmaI CCCGGG 1 cut(s) 493
ZraI GACGTC 1 cut(s) 239
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.