Rroxscaffold_164G00436000

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000164
OG0000806
Physical Location & Seq
Forward (+)
29878 .. 30492
615 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_164G00436000.1

Sequence Viewer

Length: 615 bp
ATGGGATTAAAGAAGATTGAAATCAAGAAAATAACAGATAAAAAATCCCTTAAGGTCACCTACTCTAAGAGGCGCAAAGGTCTGTTTCGCAAAGCCGATGACTTTTGCTCCAAAACCGGTGCTCAAATCGCCATTATCACCTTTTCACCGGGTATGAAACCGATGACGTTTGGTCAACCTTCTGTAGAGTCCATCATAGATCGATATGAGCTCTGCGAACAAAGTTCAAATGTCGATGACAAAGAAATTCTTGATAAAGATGTTCATCATGGGGATGGTGAAGATTTAGATTTAGGAGCAAGACAAGAGAGAATAGAAGAGGTTGGTATGAACGATGAGGAAAAGGAATTACTTGAAGTTGATGGTATGGGACTGGATGAGCTCAAGCAATATGCGACTAGGGTAGAAGAACAAAGGAACAAGTTGGCTTGGCCAATAGAAGAAAGGAGGAGGAGAGAATCGAGCACCATCAACTTGTTAGGAGTGAATTGCTGGAGTACTTCTGAAGATTTGAAGCTTTTTGGTATAAAGGTGGGAGAAAAGATGGAGCTAGAAGAGATGAAGAGGAGGGAATCATGCACAAAGGACTTTTTGAGTATTGTCGGTATCAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04011 ko04111 map04011 map04111
Pfam Domains
Protein Families
SRF-TF

Protein Analysis

204

Amino Acids

23.44

Weight (kDa)

5.51

Isoelectric Point (pI)

55.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 10 - 57 4.9e-16 SRF-type transcription factor (DNA-binding and dimerisation 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcoI YGGCCR 1 cut(s) 431
AcsI RAATTY 1 cut(s) 246
AcuI CTGAAG 1 cut(s) 525
AfaI GTAC 1 cut(s) 499
AflII CTTAAG 1 cut(s) 50
AgeI ACCGGT 1 cut(s) 116
AgsI TTSAA 4 cut(s) 20, 228, 356, 514
AhdI GACNNNNNGTC 1 cut(s) 171
AluBI AGCT 4 cut(s) 211, 382, 517, 550
AluI AGCT 4 cut(s) 211, 382, 517, 550
Alw21I GWGCWC 4 cut(s) 124, 213, 384, 467
AoxI GGCC 1 cut(s) 431
ApoI RAATTY 1 cut(s) 246
AsiGI ACCGGT 1 cut(s) 116
AspLEI GCGC 1 cut(s) 75
AsuC2I CCSGG 1 cut(s) 150
AsuHPI GGTGA 4 cut(s) 49, 130, 138, 290
BalI TGGCCA 1 cut(s) 433
BanII GRGCYC 2 cut(s) 213, 384
Bbv12I GWGCWC 4 cut(s) 124, 213, 384, 467
BccI CCATC 5 cut(s) 200, 269, 356, 476, 538
BcnI CCSGG 1 cut(s) 150
BfaI CTAG 2 cut(s) 399, 551
BfmI CTRYAG 1 cut(s) 183
BfrI CTTAAG 1 cut(s) 50
BmcAI AGTACT 1 cut(s) 499
Bme1390I CCNGG 1 cut(s) 150
BmeRI GACNNNNNGTC 1 cut(s) 171
BmrFI CCNGG 1 cut(s) 150
BpmI CTGGAG 1 cut(s) 514
BpuEI CTTGAG 1 cut(s) 368
BpuMI CCSGG 1 cut(s) 150
Bsa29I ATCGAT 1 cut(s) 202
BsaBI GATNNNNATC 2 cut(s) 20, 264
BsaWI WCCGGW 1 cut(s) 116
BsaXI ACNNNNNCTCC 2 cut(s) 92, 122
Bse118I RCCGGY 1 cut(s) 116
Bse1I ACTGG 1 cut(s) 378
Bse8I GATNNNNATC 2 cut(s) 20, 264
BseCI ATCGAT 1 cut(s) 202
BseGI GGATG 2 cut(s) 280, 382
BseJI GATNNNNATC 2 cut(s) 20, 264
BseNI ACTGG 1 cut(s) 378
BseRI GAGGAG 3 cut(s) 463, 466, 580
BshFI GGCC 1 cut(s) 433
BshTI ACCGGT 1 cut(s) 116
BshVI ATCGAT 1 cut(s) 202
BsiHKAI GWGCWC 4 cut(s) 124, 213, 384, 467
BsiSI CCGG 2 cut(s) 117, 149
BslFI GGGAC 1 cut(s) 384
BsmFI GGGAC 1 cut(s) 384
BsnI GGCC 1 cut(s) 433
Bsp1286I GDGCHC 4 cut(s) 124, 213, 384, 467
Bsp143I GATC 1 cut(s) 199
BspANI GGCC 1 cut(s) 433
BspDI ATCGAT 1 cut(s) 202
BspTI CTTAAG 1 cut(s) 50
BsrFI RCCGGY 1 cut(s) 116
BsrI ACTGG 1 cut(s) 378
BssAI RCCGGY 1 cut(s) 116
BssMI GATC 1 cut(s) 199
Bst6I CTCTTC 3 cut(s) 312, 549, 557
BstAFI CTTAAG 1 cut(s) 50
BstDEI CTNAG 1 cut(s) 66
BstEII GGTNACC 1 cut(s) 55
BstF5I GGATG 2 cut(s) 280, 382
BstHHI GCGC 1 cut(s) 75
BstKTI GATC 1 cut(s) 202
BstMBI GATC 1 cut(s) 199
BstMWI GCNNNNNNNGC 1 cut(s) 128
BstPI GGTNACC 1 cut(s) 55
BstSCI CCNGG 1 cut(s) 148
BstSFI CTRYAG 1 cut(s) 183
Bsu15I ATCGAT 1 cut(s) 202
BsuRI GGCC 1 cut(s) 433
BsuTUI ATCGAT 1 cut(s) 202
BtsCI GGATG 2 cut(s) 280, 382
CfoI GCGC 1 cut(s) 75
Cfr10I RCCGGY 1 cut(s) 116
ClaI ATCGAT 1 cut(s) 202
Csp6I GTAC 1 cut(s) 498
CspAI ACCGGT 1 cut(s) 116
CviAII CATG 2 cut(s) 269, 576
CviJI RGCY 7 cut(s) 95, 211, 382, 428, 433, 517, 550
CviKI_1 RGCY 7 cut(s) 95, 211, 382, 428, 433, 517, 550
CviQI GTAC 1 cut(s) 498
DdeI CTNAG 1 cut(s) 66
DpnI GATC 1 cut(s) 201
DpnII GATC 1 cut(s) 199
DriI GACNNNNNGTC 1 cut(s) 171
EaeI YGGCCR 1 cut(s) 431
Eam1104I CTCTTC 3 cut(s) 312, 549, 557
Eam1105I GACNNNNNGTC 1 cut(s) 171
EarI CTCTTC 3 cut(s) 312, 549, 557
Ecl136II GAGCTC 2 cut(s) 211, 382
Eco24I GRGCYC 2 cut(s) 213, 384
Eco53kI GAGCTC 2 cut(s) 211, 382
Eco57I CTGAAG 1 cut(s) 525
Eco91I GGTNACC 1 cut(s) 55
EcoICRI GAGCTC 2 cut(s) 211, 382
EcoO65I GGTNACC 1 cut(s) 55
EcoT38I GRGCYC 2 cut(s) 213, 384
FaeI CATG 2 cut(s) 272, 579
FaiI YATR 9 cut(s) 155, 197, 207, 270, 329, 368, 393, 527, 577
FalI AAGNNNNNCTT 2 cut(s) 234, 266
FaqI GGGAC 1 cut(s) 384
FatI CATG 2 cut(s) 268, 575
FokI GGATG 2 cut(s) 287, 389
FriOI GRGCYC 2 cut(s) 213, 384
FspBI CTAG 2 cut(s) 399, 551
GlaI GCGC 1 cut(s) 74
GsuI CTGGAG 1 cut(s) 514
HaeIII GGCC 1 cut(s) 433
HapII CCGG 2 cut(s) 117, 149
HhaI GCGC 1 cut(s) 75
Hin1II CATG 2 cut(s) 272, 579
Hin6I GCGC 1 cut(s) 73
HinP1I GCGC 1 cut(s) 73
HincII GTYRAC 1 cut(s) 176
HindII GTYRAC 1 cut(s) 176
HindIII AAGCTT 1 cut(s) 515
HinfI GANTC 3 cut(s) 188, 458, 572
HpaII CCGG 2 cut(s) 117, 149
HphI GGTGA 4 cut(s) 49, 130, 138, 290
Hpy166II GTNNAC 1 cut(s) 176
Hpy188I TCNGA 1 cut(s) 505
Hpy188III TCNNGA 2 cut(s) 25, 251
Hpy8I GTNNAC 1 cut(s) 176
HpyAV CCTTC 1 cut(s) 189
HpyCH4IV ACGT 1 cut(s) 167
HpyCH4V TGCA 1 cut(s) 579
HpyF10VI GCNNNNNNNGC 1 cut(s) 128
HpyF3I CTNAG 1 cut(s) 66
HpySE526I ACGT 1 cut(s) 167
Hsp92II CATG 2 cut(s) 272, 579
HspAI GCGC 1 cut(s) 73
Kzo9I GATC 1 cut(s) 199
LmnI GCTCC 3 cut(s) 113, 296, 547
LpnPI CCDG 4 cut(s) 130, 162, 359, 478
MaeI CTAG 2 cut(s) 399, 551
MaeII ACGT 1 cut(s) 167
MaeIII GTNAC 1 cut(s) 55
MalI GATC 1 cut(s) 201
MboI GATC 1 cut(s) 199
MboII GAAGA 8 cut(s) 25, 293, 329, 419, 452, 518, 566, 574
MhlI GDGCHC 4 cut(s) 124, 213, 384, 467
MlsI TGGCCA 1 cut(s) 433
MluCI AATT 3 cut(s) 246, 347, 487
MluNI TGGCCA 1 cut(s) 433
MlyI GAGTC 1 cut(s) 197
MnlI CCTC 7 cut(s) 63, 313, 331, 441, 444, 558, 561
Mox20I TGGCCA 1 cut(s) 433
MscI TGGCCA 1 cut(s) 433
MseI TTAA 2 cut(s) 8, 51
MslI CAYNNNNRTG 1 cut(s) 273
Msp20I TGGCCA 1 cut(s) 433
MspCI CTTAAG 1 cut(s) 50
MspI CCGG 2 cut(s) 117, 149
MspR9I CCNGG 1 cut(s) 150
MwoI GCNNNNNNNGC 1 cut(s) 128
NciI CCSGG 1 cut(s) 150
NdeII GATC 1 cut(s) 199
NlaIII CATG 2 cut(s) 272, 579
NmuCI GTSAC 1 cut(s) 55
PfeI GAWTC 2 cut(s) 458, 572
PinAI ACCGGT 1 cut(s) 116
PleI GAGTC 1 cut(s) 196
PpsI GAGTC 1 cut(s) 196
Psp124BI GAGCTC 2 cut(s) 213, 384
PspEI GGTNACC 1 cut(s) 55
RsaI GTAC 1 cut(s) 499
RsaNI GTAC 1 cut(s) 498
RseI CAYNNNNRTG 1 cut(s) 273
SacI GAGCTC 2 cut(s) 213, 384
SaqAI TTAA 2 cut(s) 8, 51
Sau3AI GATC 1 cut(s) 199
ScaI AGTACT 1 cut(s) 499
SchI GAGTC 1 cut(s) 197
ScrFI CCNGG 1 cut(s) 150
SduI GDGCHC 4 cut(s) 124, 213, 384, 467
SfcI CTRYAG 1 cut(s) 183
SmiMI CAYNNNNRTG 1 cut(s) 273
SmlI CTYRAG 2 cut(s) 50, 383
SmoI CTYRAG 2 cut(s) 50, 383
Sse9I AATT 3 cut(s) 246, 347, 487
SspMI CTAG 2 cut(s) 399, 551
SstI GAGCTC 2 cut(s) 213, 384
StyD4I CCNGG 1 cut(s) 148
TaiI ACGT 1 cut(s) 170
TaqI TCGA 3 cut(s) 202, 234, 461
TasI AATT 3 cut(s) 246, 347, 487
TatI WGTACW 1 cut(s) 497
TfiI GAWTC 2 cut(s) 458, 572
Tru1I TTAA 2 cut(s) 8, 51
Tru9I TTAA 2 cut(s) 8, 51
TseFI GTSAC 1 cut(s) 55
Tsp45I GTSAC 1 cut(s) 55
TspDTI ATGAA 4 cut(s) 170, 254, 344, 575
Vha464I CTTAAG 1 cut(s) 50
XapI RAATTY 1 cut(s) 246
XspI CTAG 2 cut(s) 399, 551
ZrmI AGTACT 1 cut(s) 499
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.