Rh7CG323000

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
Chr7C
OG0014937
Physical Location & Seq
Forward (+)
35160358 .. 35163569
3212 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7CG323000.1

Sequence Viewer

Length: 930 bp
ATGGCGGGGTACAATGGCAGATCAGAATATATGCAACTCTTCCGTCCCGAACTGCACCTCCAGAGACCACCGTCACCGTCCATCTCTGTTCCGCCGCAGCAACAACAACCTCAACCTTCTTCCGATTCTCAACAGCAAGAAGACTCGCCCGAAGGAGACCAAGAACATAAGATCGAGTCCGACACCGCCGCCACAAGTTCCGGAGGCGGCGGTGGCGGTAGCGGTGGGGGTTCAGGACGTCGTCCGCGGGGACGTCCGGCGGGGTCAAAGAACAAGCCGAAGCCGCCGATCATTGTGACGCGCGACAGCCCCAACGCGCTCCGCTCGCACGTGCTGGAGGTCTCTGCCGGGACAGACGTGGTGGAGAGCGTGTCCCACTACGCGAGGCGGAGGGGGAGGGGAGTGTGCGTGCTCAGCGGCACCGGCACCGTCGCTAACGTCACCTTGCGTCAGCCGGCGGCGCCCGTGGGGAGCGTGGTCACTCTCCACGGGAGGTTCGAAATACTTTCGCTCTCGGGGACGGTGCTTCCGCCTCCGGCCCCCCCGGGCGCCGGGGGACTGTCGATTTTCCTGGCGGGCGGGCAGGGTCAGGTGGTTGGGGGCAGCGTGGTGGGCCCACTGCTGGCTTCGGGGCCGGTTGTTTTGATGGCTGCGTCGTTTGCGAATGCGGTGTTTGAGAGGCTGCCATTGGAGGAGGAAGAGGCAGCGGGCGGTGGTGGGTTACAAGTCCAGCAACCGACGGCTTCACAATCTTCAGGAGTGACAGGTGGTGGTGGTGGAGGACAACATCAGCAGCTTGGTGAGGGAAGCAGCGGCGGTCTCTTTAATCTGGGAGGGAACATGGGGGCGGGGAGCTATCCGGCGTTTTCGGGAACTGATTTGTACGGGTGGGGTAGCGGCGGAGCTACTCATCCGCGGCCTCCGTTTTAG
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

309

Amino Acids

31.08

Weight (kDa)

6.66

Isoelectric Point (pI)

73.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 108 - 221 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 2 cut(s) 241, 256
AccB1I GGYRCC 4 cut(s) 419, 425, 460, 548
AccBSI CCGCTC 1 cut(s) 324
AccII CGCG 6 cut(s) 247, 301, 303, 317, 383, 916
AccIII TCCGGA 1 cut(s) 200
AcuI CTGAAG 1 cut(s) 738
AcvI CACGTG 1 cut(s) 331
AcyI GRCGYC 4 cut(s) 238, 253, 461, 549
AfaI GTAC 2 cut(s) 11, 884
AfiI CCNNNNNNNGG 2 cut(s) 551, 622
AjiI CACGTC 1 cut(s) 358
AjnI CCWGG 1 cut(s) 570
AloI GAACNNNNNNTCC 2 cut(s) 42, 74
AluBI AGCT 3 cut(s) 796, 855, 905
AluI AGCT 3 cut(s) 796, 855, 905
Alw21I GWGCWC 1 cut(s) 414
Alw26I GTCTC 4 cut(s) 58, 150, 346, 824
Ama87I CYCGRG 2 cut(s) 514, 544
Aor13HI TCCGGA 1 cut(s) 200
AoxI GGCC 4 cut(s) 537, 613, 632, 917
ApaI GGGCCC 1 cut(s) 617
ApeKI GCWGC 7 cut(s) 97, 603, 650, 682, 704, 793, 810
AspLEI GCGC 4 cut(s) 303, 319, 463, 551
AspS9I GGNCC 4 cut(s) 538, 613, 614, 632
AsuC2I CCSGG 4 cut(s) 349, 545, 546, 553
AsuHPI GGTGA 3 cut(s) 66, 433, 812
AsuII TTCGAA 1 cut(s) 498
AvaI CYCGRG 2 cut(s) 514, 544
BaeGI GKGCMC 1 cut(s) 617
BanI GGYRCC 4 cut(s) 419, 425, 460, 548
BanII GRGCYC 1 cut(s) 617
BbrPI CACGTG 1 cut(s) 331
BbsI GAAGAC 1 cut(s) 147
Bbv12I GWGCWC 1 cut(s) 414
BbvI GCAGC 7 cut(s) 109, 615, 637, 669, 716, 805, 822
BccI CCATC 2 cut(s) 89, 640
BceAI ACGGC 1 cut(s) 756
BciT130I CCWGG 1 cut(s) 572
BcnI CCSGG 4 cut(s) 349, 545, 546, 553
BcoDI GTCTC 4 cut(s) 58, 150, 346, 824
BfoI RGCGCY 2 cut(s) 464, 552
BlpI GCTNAGC 1 cut(s) 413
Bme1390I CCNGG 5 cut(s) 349, 545, 546, 553, 572
BmeT110I CYCGRG 2 cut(s) 514, 544
BmgBI CACGTC 1 cut(s) 358
BmgT120I GGNCC 4 cut(s) 538, 613, 614, 632
BmiI GGNNCC 7 cut(s) 421, 427, 462, 540, 550, 615, 633
BmrFI CCNGG 5 cut(s) 349, 545, 546, 553, 572
BoxI GACNNNNGTC 1 cut(s) 70
BpiI GAAGAC 1 cut(s) 147
BpmI CTGGAG 2 cut(s) 44, 356
Bpu1102I GCTNAGC 1 cut(s) 413
Bpu14I TTCGAA 1 cut(s) 498
BpuMI CCSGG 4 cut(s) 349, 545, 546, 553
BsaAI YACGTR 1 cut(s) 331
BsaHI GRCGYC 4 cut(s) 238, 253, 461, 549
BsaI GGTCTC 4 cut(s) 58, 150, 346, 824
BsaJI CCNNGG 7 cut(s) 245, 465, 487, 543, 544, 552, 914
BsaWI WCCGGW 1 cut(s) 200
BsaXI ACNNNNNCTCC 6 cut(s) 42, 72, 356, 386, 393, 423
Bsc4I CCNNNNNNNGG 2 cut(s) 551, 622
Bse118I RCCGGY 3 cut(s) 422, 454, 634
BseAI TCCGGA 1 cut(s) 200
BseBI CCWGG 1 cut(s) 572
BseDI CCNNGG 7 cut(s) 245, 465, 487, 543, 544, 552, 914
BseGI GGATG 1 cut(s) 910
BseLI CCNNNNNNNGG 2 cut(s) 551, 622
BseMII CTCAG 1 cut(s) 427
BseRI GAGGAG 1 cut(s) 707
BseSI GKGCMC 1 cut(s) 617
BseXI GCAGC 7 cut(s) 109, 615, 637, 669, 716, 805, 822
BsgI GTGCAG 1 cut(s) 38
Bsh1236I CGCG 6 cut(s) 247, 301, 303, 317, 383, 916
BshFI GGCC 4 cut(s) 539, 615, 634, 919
BshNI GGYRCC 4 cut(s) 419, 425, 460, 548
BsiHKAI GWGCWC 1 cut(s) 414
BsiHKCI CYCGRG 2 cut(s) 514, 544
BslFI GGGAC 6 cut(s) 30, 264, 358, 364, 532, 570
BslI CCNNNNNNNGG 2 cut(s) 551, 622
BsmAI GTCTC 4 cut(s) 58, 150, 346, 824
BsmFI GGGAC 6 cut(s) 30, 264, 358, 364, 532, 570
BsmI GAATGC 1 cut(s) 670
BsnI GGCC 4 cut(s) 539, 615, 634, 919
Bso31I GGTCTC 4 cut(s) 58, 150, 346, 824
BsoBI CYCGRG 2 cut(s) 514, 544
Bsp119I TTCGAA 1 cut(s) 498
Bsp120I GGGCCC 1 cut(s) 613
Bsp1286I GDGCHC 2 cut(s) 414, 617
Bsp13I TCCGGA 1 cut(s) 200
Bsp143I GATC 3 cut(s) 20, 171, 288
Bsp1720I GCTNAGC 1 cut(s) 413
BspANI GGCC 4 cut(s) 539, 615, 634, 919
BspCNI CTCAG 1 cut(s) 426
BspEI TCCGGA 1 cut(s) 200
BspFNI CGCG 6 cut(s) 247, 301, 303, 317, 383, 916
BspLI GGNNCC 7 cut(s) 421, 427, 462, 540, 550, 615, 633
BspT104I TTCGAA 1 cut(s) 498
BspT107I GGYRCC 4 cut(s) 419, 425, 460, 548
BspTNI GGTCTC 4 cut(s) 58, 150, 346, 824
BsrBI CCGCTC 1 cut(s) 324
BsrFI RCCGGY 3 cut(s) 422, 454, 634
BssAI RCCGGY 3 cut(s) 422, 454, 634
BssECI CCNNGG 7 cut(s) 245, 465, 487, 543, 544, 552, 914
BssMI GATC 3 cut(s) 20, 171, 288
BssNI GRCGYC 4 cut(s) 238, 253, 461, 549
Bst2UI CCWGG 1 cut(s) 572
Bst4CI ACNGT 5 cut(s) 72, 78, 430, 523, 561
Bst6I CTCTTC 2 cut(s) 44, 693
BstACI GRCGYC 4 cut(s) 238, 253, 461, 549
BstBAI YACGTR 1 cut(s) 331
BstBI TTCGAA 1 cut(s) 498
BstC8I GCNNGC 7 cut(s) 326, 410, 456, 577, 581, 624, 709
BstDEI CTNAG 1 cut(s) 413
BstDSI CCRYGG 4 cut(s) 245, 465, 487, 914
BstF5I GGATG 1 cut(s) 910
BstFNI CGCG 6 cut(s) 247, 301, 303, 317, 383, 916
BstH2I RGCGCY 2 cut(s) 464, 552
BstHHI GCGC 4 cut(s) 303, 319, 463, 551
BstKTI GATC 3 cut(s) 23, 174, 291
BstMAI GTCTC 4 cut(s) 58, 150, 346, 824
BstMBI GATC 3 cut(s) 20, 171, 288
BstMWI GCNNNNNNNGC 8 cut(s) 213, 283, 325, 414, 423, 460, 612, 659
BstNI CCWGG 1 cut(s) 572
BstPAI GACNNNNGTC 1 cut(s) 70
BstSCI CCNGG 5 cut(s) 347, 543, 544, 551, 570
BstSLI GKGCMC 1 cut(s) 617
BstUI CGCG 6 cut(s) 247, 301, 303, 317, 383, 916
BstV1I GCAGC 7 cut(s) 109, 615, 637, 669, 716, 805, 822
BstV2I GAAGAC 1 cut(s) 147
BsuRI GGCC 4 cut(s) 539, 615, 634, 919
BtgI CCRYGG 4 cut(s) 245, 465, 487, 914
BtrI CACGTC 1 cut(s) 358
BtsCI GGATG 1 cut(s) 910
BtsI GCAGTG 1 cut(s) 617
BtsIMutI CAGTG 1 cut(s) 617
Cac8I GCNNGC 7 cut(s) 326, 410, 456, 577, 581, 624, 709
CfoI GCGC 4 cut(s) 303, 319, 463, 551
Cfr10I RCCGGY 3 cut(s) 422, 454, 634
Cfr13I GGNCC 4 cut(s) 538, 613, 614, 632
Cfr42I CCGCGG 2 cut(s) 248, 917
Cfr9I CCCGGG 1 cut(s) 544
CseI GACGC 3 cut(s) 307, 437, 642
Csp6I GTAC 2 cut(s) 10, 883
CviAII CATG 1 cut(s) 841
CviQI GTAC 2 cut(s) 10, 883
DdeI CTNAG 1 cut(s) 413
DinI GGCGCC 2 cut(s) 462, 550
DpnI GATC 3 cut(s) 22, 173, 290
DpnII GATC 3 cut(s) 20, 171, 288
Eam1104I CTCTTC 2 cut(s) 44, 693
EarI CTCTTC 2 cut(s) 44, 693
EciI GGCGGA 4 cut(s) 81, 403, 519, 915
Eco24I GRGCYC 1 cut(s) 617
Eco31I GGTCTC 4 cut(s) 58, 150, 346, 824
Eco57I CTGAAG 1 cut(s) 738
Eco72I CACGTG 1 cut(s) 331
Eco88I CYCGRG 2 cut(s) 514, 544
EcoRII CCWGG 1 cut(s) 570
EcoT38I GRGCYC 1 cut(s) 617
EgeI GGCGCC 2 cut(s) 462, 550
EheI GGCGCC 2 cut(s) 462, 550
FaeI CATG 1 cut(s) 844
FaiI YATR 4 cut(s) 30, 32, 168, 842
FaqI GGGAC 6 cut(s) 30, 264, 358, 364, 532, 570
FatI CATG 1 cut(s) 840
FauI CCCGC 6 cut(s) 240, 253, 568, 572, 700, 841
FokI GGATG 1 cut(s) 897
FriOI GRGCYC 1 cut(s) 617
GlaI GCGC 4 cut(s) 302, 318, 462, 550
GsuI CTGGAG 2 cut(s) 44, 356
HaeII RGCGCY 2 cut(s) 464, 552
HaeIII GGCC 4 cut(s) 539, 615, 634, 919
HgaI GACGC 3 cut(s) 307, 437, 642
HhaI GCGC 4 cut(s) 303, 319, 463, 551
Hin1I GRCGYC 4 cut(s) 238, 253, 461, 549
Hin1II CATG 1 cut(s) 844
Hin6I GCGC 4 cut(s) 301, 317, 461, 549
HinP1I GCGC 4 cut(s) 301, 317, 461, 549
HinfI GANTC 3 cut(s) 125, 143, 176
HphI GGTGA 3 cut(s) 66, 433, 812
Hpy188I TCNGA 3 cut(s) 25, 124, 181
Hpy188III TCNNGA 6 cut(s) 47, 61, 201, 234, 756, 870
Hpy99I CGWCG 4 cut(s) 243, 434, 658, 742
HpyAV CCTTC 2 cut(s) 126, 146
HpyCH4III ACNGT 5 cut(s) 72, 78, 430, 523, 561
HpyCH4IV ACGT 5 cut(s) 238, 253, 330, 357, 438
HpyCH4V TGCA 2 cut(s) 34, 55
HpyF10VI GCNNNNNNNGC 8 cut(s) 213, 283, 325, 414, 423, 460, 612, 659
HpyF3I CTNAG 1 cut(s) 413
HpySE526I ACGT 5 cut(s) 238, 253, 330, 357, 438
Hsp92I GRCGYC 4 cut(s) 238, 253, 461, 549
Hsp92II CATG 1 cut(s) 844
HspAI GCGC 4 cut(s) 301, 317, 461, 549
KasI GGCGCC 2 cut(s) 460, 548
Kpn2I TCCGGA 1 cut(s) 200
KroI GCCGGC 1 cut(s) 454
KroNI GCCGGC 1 cut(s) 456
KspI CCGCGG 2 cut(s) 248, 917
Kzo9I GATC 3 cut(s) 20, 171, 288
LmnI GCTCC 4 cut(s) 324, 471, 852, 902
Lsp1109I GCAGC 7 cut(s) 109, 615, 637, 669, 716, 805, 822
MaeII ACGT 5 cut(s) 238, 253, 330, 357, 438
MaeIII GTNAC 6 cut(s) 72, 295, 439, 478, 720, 760
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, 710, 744
MhlI GDGCHC 2 cut(s) 414, 617
Mly113I GGCGCC 2 cut(s) 461, 549
MlyI GAGTC 2 cut(s) 137, 185
MmeI TCCRAC 1 cut(s) 204
MroI TCCGGA 1 cut(s) 200
MroNI GCCGGC 1 cut(s) 454
MseI TTAA 1 cut(s) 825
MspA1I CMGCKG 5 cut(s) 247, 417, 707, 813, 916
MspR9I CCNGG 5 cut(s) 349, 545, 546, 553, 572
Mva1269I GAATGC 1 cut(s) 670
MvaI CCWGG 1 cut(s) 572
MvnI CGCG 6 cut(s) 247, 301, 303, 317, 383, 916
MwoI GCNNNNNNNGC 8 cut(s) 213, 283, 325, 414, 423, 460, 612, 659
NaeI GCCGGC 1 cut(s) 456
NarI GGCGCC 2 cut(s) 461, 549
NciI CCSGG 4 cut(s) 349, 545, 546, 553
NdeII GATC 3 cut(s) 20, 171, 288
NgoMIV GCCGGC 1 cut(s) 454
NlaIII CATG 1 cut(s) 844
NlaIV GGNNCC 7 cut(s) 421, 427, 462, 540, 550, 615, 633
NmuCI GTSAC 5 cut(s) 72, 295, 439, 478, 760
NspV TTCGAA 1 cut(s) 498
PcsI WCGNNNNNNNCGW 1 cut(s) 495
PctI GAATGC 1 cut(s) 670
PdiI GCCGGC 1 cut(s) 456
PfeI GAWTC 1 cut(s) 125
PflFI GACNNNGTC 1 cut(s) 240
PleI GAGTC 2 cut(s) 137, 184
PluTI GGCGCC 2 cut(s) 464, 552
PmaCI CACGTG 1 cut(s) 331
PmlI CACGTG 1 cut(s) 331
PpsI GAGTC 2 cut(s) 137, 184
Ppu21I YACGTR 1 cut(s) 331
PshAI GACNNNNGTC 1 cut(s) 70
Psp6I CCWGG 1 cut(s) 570
PspCI CACGTG 1 cut(s) 331
PspGI CCWGG 1 cut(s) 570
PspN4I GGNNCC 7 cut(s) 421, 427, 462, 540, 550, 615, 633
PspOMI GGGCCC 1 cut(s) 613
PspPI GGNCC 4 cut(s) 538, 613, 614, 632
PsyI GACNNNGTC 1 cut(s) 240
RsaI GTAC 2 cut(s) 11, 884
RsaNI GTAC 2 cut(s) 10, 883
SacII CCGCGG 2 cut(s) 248, 917
SaqAI TTAA 1 cut(s) 825
Sau3AI GATC 3 cut(s) 20, 171, 288
Sau96I GGNCC 4 cut(s) 538, 613, 614, 632
SchI GAGTC 2 cut(s) 137, 185
ScrFI CCNGG 5 cut(s) 349, 545, 546, 553, 572
SduI GDGCHC 2 cut(s) 414, 617
SfoI GGCGCC 2 cut(s) 462, 550
Sfr303I CCGCGG 2 cut(s) 248, 917
SfuI TTCGAA 1 cut(s) 498
SgrBI CCGCGG 2 cut(s) 248, 917
SmaI CCCGGG 1 cut(s) 546
SspDI GGCGCC 2 cut(s) 460, 548
StyD4I CCNGG 5 cut(s) 347, 543, 544, 551, 570
TaaI ACNGT 5 cut(s) 72, 78, 430, 523, 561
TaiI ACGT 5 cut(s) 241, 256, 333, 360, 441
TaqI TCGA 3 cut(s) 174, 498, 563
TauI GCSGC 9 cut(s) 97, 191, 210, 286, 420, 461, 816, 900, 919
TfiI GAWTC 1 cut(s) 125
Tru1I TTAA 1 cut(s) 825
Tru9I TTAA 1 cut(s) 825
TscAI CASTG 1 cut(s) 624
TseFI GTSAC 5 cut(s) 72, 295, 439, 478, 760
TseI GCWGC 7 cut(s) 97, 603, 650, 682, 704, 793, 810
Tsp45I GTSAC 5 cut(s) 72, 295, 439, 478, 760
TspGWI ACGGA 2 cut(s) 32, 912
TspMI CCCGGG 1 cut(s) 544
TspRI CASTG 1 cut(s) 624
Tth111I GACNNNGTC 1 cut(s) 240
XmaI CCCGGG 1 cut(s) 544
ZraI GACGTC 2 cut(s) 239, 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.