Rroxscaffold_1G00035810

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0017719
Physical Location & Seq
Reverse (-)
52115264 .. 52117898
2635 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00035810.1

Sequence Viewer

Length: 747 bp
ATGGCAAAAGCTTTCGAACGAGAGGAAAAGAGTGTGATTTTCTTTAACATCGAAAGAAAAGTGCAAGAAGGCAAGAACACGGAGACAATGACTGAAACTTTTGGAAGGAGAAGGCATGCCACTTTGGTCAAGAAAGCCCAAGAATTATCTATTCTATGTGCCGCAGAGGTCGCAGTCATCGCTTTCACAAGCGATGGAAAGCTTCATGAGTATTCTAGCACCAGTGTGGAACACACTCTTTCAAGATACAAGAACAATAAGGGCGGCCTAGTCCTCCCAACCAAGGTGGAATCTGATCCGCCAAAGAAGCGCTGCAGCGAAACTGCTGCGGAAGAGGAGGACCCAAAATCAAGTGACAAAGTTCTTCATGCACTCAAGGGACAACATGCAGCGCTGAAATTAGACAAGCAGCGGAGGATGGGAAAGGCGTTGGATGGCTTAAGTAGGGAAGAGCTGTATGCCCTAGAGCAACAACAAAAGTGGGCGTTAGTATCTGTCATGAAAAAGAAGGAAGAACTACTTGTGCGGTTGTTGCACAGGTCTAAGGCGCGTGAACAGCAAGCCATTCAGGAGAAGGAGAATTTGAGAAGGGGTTATGAAGTGAGGACGACGGAAAAGCCATATCTCCAACTGTTCCCTGAGAACAGTACGAGTTTCTGCACAAGCTCGAAAGCTGTTTCACTTTCGAATTGTCCAACAAAGAATATGGACACTTCTTTGCACCTTGGGCTGTCATATAACTCATAA
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
SRF-TF

Protein Analysis

248

Amino Acids

28.16

Weight (kDa)

9.29

Isoelectric Point (pI)

51.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 29 - 71 2.9e-13 SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box PF01486 116 - 197 3.7e-07 K-box region
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: OG0017719)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g29460
rosa_chinensis RchiOBHm_Chr5g0045241
rosa_laevigata RLG00000034347
rosa_multiflora Rmu_sc0001773.1_g000020 Rmu_sc0007992.1_g000003
rosa_roxburghii Rroxscaffold_1G00035810
rosa_rugosa Rorug05G0222100
rosa_samantha Rh5BG311700 Rh5CG337800 Rh5DG321800
rosa_wichuraiana Rw5G028140 Rw5G028450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 550
AciI CCGC 6 cut(s) 162, 264, 299, 329, 412, 526
AclWI GGATC 1 cut(s) 290
AcsI RAATTY 1 cut(s) 580
AfaI GTAC 1 cut(s) 649
AfeI AGCGCT 2 cut(s) 311, 393
AfiI CCNNNNNNNGG 1 cut(s) 283
AflII CTTAAG 1 cut(s) 439
AgsI TTSAA 1 cut(s) 243
AleI CACNNNNGTG 1 cut(s) 224
AluBI AGCT 5 cut(s) 11, 202, 454, 666, 674
AluI AGCT 5 cut(s) 11, 202, 454, 666, 674
Alw26I GTCTC 1 cut(s) 77
AlwI GGATC 1 cut(s) 290
Aor51HI AGCGCT 2 cut(s) 311, 393
AoxI GGCC 1 cut(s) 265
ApeKI GCWGC 5 cut(s) 312, 315, 326, 389, 409
ApoI RAATTY 1 cut(s) 580
AspLEI GCGC 3 cut(s) 312, 394, 550
AspS9I GGNCC 1 cut(s) 340
AsuII TTCGAA 2 cut(s) 15, 686
AvaII GGWCC 1 cut(s) 340
BbvI GCAGC 5 cut(s) 299, 313, 327, 401, 421
BccI CCATC 3 cut(s) 188, 412, 428
BcgI CGANNNNNNTGC 2 cut(s) 308, 342
BcoDI GTCTC 1 cut(s) 77
BfaI CTAG 3 cut(s) 216, 269, 464
BfmI CTRYAG 1 cut(s) 313
BfoI RGCGCY 2 cut(s) 313, 395
BfrI CTTAAG 1 cut(s) 439
BisI GCNGC 7 cut(s) 162, 265, 313, 316, 327, 390, 410
BlsI GCNGC 7 cut(s) 163, 266, 314, 317, 328, 391, 411
Bme18I GGWCC 1 cut(s) 340
BmgT120I GGNCC 1 cut(s) 340
BmiI GGNNCC 1 cut(s) 342
Bpu14I TTCGAA 2 cut(s) 15, 686
BpuEI CTTGAG 1 cut(s) 359
BsaJI CCNNGG 2 cut(s) 282, 724
Bsc4I CCNNNNNNNGG 1 cut(s) 283
Bse1I ACTGG 1 cut(s) 222
BseDI CCNNGG 2 cut(s) 282, 724
BseGI GGATG 2 cut(s) 423, 439
BseLI CCNNNNNNNGG 1 cut(s) 283
BseMII CTCAG 1 cut(s) 630
BseNI ACTGG 1 cut(s) 222
BseRI GAGGAG 1 cut(s) 350
BseXI GCAGC 5 cut(s) 299, 313, 327, 401, 421
BsgI GTGCAG 1 cut(s) 643
Bsh1236I CGCG 1 cut(s) 550
BshFI GGCC 1 cut(s) 267
BslFI GGGAC 1 cut(s) 393
BslI CCNNNNNNNGG 1 cut(s) 283
BsmAI GTCTC 1 cut(s) 77
BsmFI GGGAC 1 cut(s) 393
BsnI GGCC 1 cut(s) 267
Bsp119I TTCGAA 2 cut(s) 15, 686
Bsp143I GATC 1 cut(s) 295
BspACI CCGC 6 cut(s) 162, 264, 299, 329, 412, 526
BspANI GGCC 1 cut(s) 267
BspCNI CTCAG 1 cut(s) 631
BspFNI CGCG 1 cut(s) 550
BspHI TCATGA 2 cut(s) 205, 498
BspLI GGNNCC 1 cut(s) 342
BspMAI CTGCAG 1 cut(s) 317
BspPI GGATC 1 cut(s) 290
BspQI GCTCTTC 1 cut(s) 444
BspT104I TTCGAA 2 cut(s) 15, 686
BspTI CTTAAG 1 cut(s) 439
BsrI ACTGG 1 cut(s) 222
BssECI CCNNGG 2 cut(s) 282, 724
BssMI GATC 1 cut(s) 295
BssT1I CCWWGG 2 cut(s) 282, 724
Bst4CI ACNGT 2 cut(s) 633, 647
Bst6I CTCTTC 2 cut(s) 327, 444
BstAFI CTTAAG 1 cut(s) 439
BstBI TTCGAA 2 cut(s) 15, 686
BstC8I GCNNGC 2 cut(s) 117, 561
BstDEI CTNAG 2 cut(s) 543, 639
BstF5I GGATG 2 cut(s) 423, 439
BstFNI CGCG 1 cut(s) 550
BstH2I RGCGCY 2 cut(s) 313, 395
BstHHI GCGC 3 cut(s) 312, 394, 550
BstKTI GATC 1 cut(s) 298
BstMAI GTCTC 1 cut(s) 77
BstMBI GATC 1 cut(s) 295
BstMWI GCNNNNNNNGC 6 cut(s) 170, 179, 307, 532, 556, 727
BstNSI RCATGY 2 cut(s) 119, 389
BstSFI CTRYAG 1 cut(s) 313
BstUI CGCG 1 cut(s) 550
BstV1I GCAGC 5 cut(s) 299, 313, 327, 401, 421
BsuRI GGCC 1 cut(s) 267
BtgZI GCGATG 2 cut(s) 163, 207
BtsCI GGATG 2 cut(s) 423, 439
BtsIMutI CAGTG 1 cut(s) 229
Cac8I GCNNGC 2 cut(s) 117, 561
CciI TCATGA 2 cut(s) 205, 498
CfoI GCGC 3 cut(s) 312, 394, 550
Cfr13I GGNCC 1 cut(s) 340
Csp6I GTAC 1 cut(s) 648
CspCI CAANNNNNGTGG 4 cut(s) 267, 302, 461, 496
CviAII CATG 5 cut(s) 116, 206, 368, 386, 499
CviQI GTAC 1 cut(s) 648
DdeI CTNAG 2 cut(s) 543, 639
DpnI GATC 1 cut(s) 297
DpnII GATC 1 cut(s) 295
Eam1104I CTCTTC 2 cut(s) 327, 444
EarI CTCTTC 2 cut(s) 327, 444
EciI GGCGGA 1 cut(s) 288
Eco130I CCWWGG 2 cut(s) 282, 724
Eco47I GGWCC 1 cut(s) 340
Eco47III AGCGCT 2 cut(s) 311, 393
EcoO109I RGGNCCY 1 cut(s) 340
EcoT14I CCWWGG 2 cut(s) 282, 724
ErhI CCWWGG 2 cut(s) 282, 724
FaeI CATG 5 cut(s) 119, 209, 371, 389, 502
FalI AAGNNNNNCTT 2 cut(s) 504, 536
FaqI GGGAC 1 cut(s) 393
FatI CATG 5 cut(s) 115, 205, 367, 385, 498
Fnu4HI GCNGC 7 cut(s) 162, 265, 313, 316, 327, 390, 410
FokI GGATG 2 cut(s) 430, 446
Fsp4HI GCNGC 7 cut(s) 162, 265, 313, 316, 327, 390, 410
FspBI CTAG 3 cut(s) 216, 269, 464
GlaI GCGC 3 cut(s) 311, 393, 549
GluI GCNGC 7 cut(s) 162, 265, 313, 316, 327, 390, 410
HaeII RGCGCY 2 cut(s) 313, 395
HaeIII GGCC 1 cut(s) 267
HhaI GCGC 3 cut(s) 312, 394, 550
Hin1II CATG 5 cut(s) 119, 209, 371, 389, 502
Hin6I GCGC 3 cut(s) 310, 392, 548
HinP1I GCGC 3 cut(s) 310, 392, 548
HindIII AAGCTT 2 cut(s) 9, 200
HinfI GANTC 1 cut(s) 290
Hpy166II GTNNAC 1 cut(s) 554
Hpy188I TCNGA 1 cut(s) 295
Hpy188III TCNNGA 5 cut(s) 130, 206, 243, 499, 569
Hpy8I GTNNAC 1 cut(s) 554
Hpy99I CGWCG 1 cut(s) 613
HpyAV CCTTC 6 cut(s) 62, 99, 105, 502, 568, 582
HpyCH4III ACNGT 2 cut(s) 633, 647
HpyCH4V TGCA 7 cut(s) 64, 315, 371, 389, 535, 660, 721
HpyF10VI GCNNNNNNNGC 6 cut(s) 170, 179, 307, 532, 556, 727
HpyF3I CTNAG 2 cut(s) 543, 639
Hsp92II CATG 5 cut(s) 119, 209, 371, 389, 502
HspAI GCGC 3 cut(s) 310, 392, 548
Kzo9I GATC 1 cut(s) 295
LguI GCTCTTC 1 cut(s) 444
LpnPI CCDG 4 cut(s) 235, 523, 554, 651
Lsp1109I GCAGC 5 cut(s) 299, 313, 327, 401, 421
MaeI CTAG 3 cut(s) 216, 269, 464
MaeIII GTNAC 1 cut(s) 353
MalI GATC 1 cut(s) 297
MboI GATC 1 cut(s) 295
MboII GAAGA 4 cut(s) 344, 356, 461, 524
MluCI AATT 4 cut(s) 143, 398, 580, 688
MmeI TCCRAC 3 cut(s) 411, 652, 719
MnlI CCTC 7 cut(s) 16, 160, 284, 328, 331, 408, 597
MseI TTAA 2 cut(s) 45, 440
MslI CAYNNNNRTG 1 cut(s) 224
MspA1I CMGCKG 1 cut(s) 412
MspCI CTTAAG 1 cut(s) 439
MvnI CGCG 1 cut(s) 550
MwoI GCNNNNNNNGC 6 cut(s) 170, 179, 307, 532, 556, 727
NdeII GATC 1 cut(s) 295
NlaIII CATG 5 cut(s) 119, 209, 371, 389, 502
NlaIV GGNNCC 1 cut(s) 342
NmuCI GTSAC 1 cut(s) 353
NspI RCATGY 2 cut(s) 119, 389
NspV TTCGAA 2 cut(s) 15, 686
OliI CACNNNNGTG 1 cut(s) 224
PaeI GCATGC 1 cut(s) 119
PagI TCATGA 2 cut(s) 205, 498
PciSI GCTCTTC 1 cut(s) 444
PfeI GAWTC 1 cut(s) 290
PkrI GCNGC 7 cut(s) 163, 266, 314, 317, 328, 391, 411
PpuMI RGGWCCY 1 cut(s) 340
Psp5II RGGWCCY 1 cut(s) 340
PspN4I GGNNCC 1 cut(s) 342
PspPI GGNCC 1 cut(s) 340
PspPPI RGGWCCY 1 cut(s) 340
PstI CTGCAG 1 cut(s) 317
RsaI GTAC 1 cut(s) 649
RsaNI GTAC 1 cut(s) 648
RseI CAYNNNNRTG 1 cut(s) 224
SapI GCTCTTC 1 cut(s) 444
SaqAI TTAA 2 cut(s) 45, 440
SatI GCNGC 7 cut(s) 162, 265, 313, 316, 327, 390, 410
Sau3AI GATC 1 cut(s) 295
Sau96I GGNCC 1 cut(s) 340
SetI ASST 9 cut(s) 13, 171, 204, 288, 456, 542, 668, 676, 726
SfcI CTRYAG 1 cut(s) 313
SfuI TTCGAA 2 cut(s) 15, 686
SinI GGWCC 1 cut(s) 340
SmiMI CAYNNNNRTG 1 cut(s) 224
SmlI CTYRAG 2 cut(s) 374, 439
SmoI CTYRAG 2 cut(s) 374, 439
SphI GCATGC 1 cut(s) 119
Sse9I AATT 4 cut(s) 143, 398, 580, 688
SsiI CCGC 6 cut(s) 162, 264, 299, 329, 412, 526
SspMI CTAG 3 cut(s) 216, 269, 464
StyI CCWWGG 2 cut(s) 282, 724
TaaI ACNGT 2 cut(s) 633, 647
TaqI TCGA 4 cut(s) 15, 51, 668, 686
TasI AATT 4 cut(s) 143, 398, 580, 688
TauI GCSGC 2 cut(s) 164, 267
TfiI GAWTC 1 cut(s) 290
Tru1I TTAA 2 cut(s) 45, 440
Tru9I TTAA 2 cut(s) 45, 440
TscAI CASTG 1 cut(s) 229
TseFI GTSAC 1 cut(s) 353
TseI GCWGC 5 cut(s) 312, 315, 326, 389, 409
Tsp45I GTSAC 1 cut(s) 353
TspDTI ATGAA 4 cut(s) 194, 356, 515, 612
TspGWI ACGGA 2 cut(s) 95, 626
TspRI CASTG 1 cut(s) 229
Vha464I CTTAAG 1 cut(s) 439
VpaK11BI GGWCC 1 cut(s) 340
XapI RAATTY 1 cut(s) 580
XceI RCATGY 2 cut(s) 119, 389
XspI CTAG 3 cut(s) 216, 269, 464
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.