Rorug06G0377700

Helix-hairpin-helix DNA-binding motif class 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0010638
Physical Location & Seq
Forward (+)
52402452 .. 52406162
3711 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0377700.1

Sequence Viewer

Length: 522 bp
ATGGGGAGGGGTAAGATTGAGATTAAGAGGATTGAAAACTCAAGCAACAGGCAGGTGACCTATTCTAAGAGAAAGAATGGGATCATCAAAAAGGCTAAGGAAATCACTGTTCTTTGTGATGCTAAGGTTTCTCTTATTATCATTGCTAGCTCTGGAAAAATGGTTGAATACTGCAGCGGCCCTCAGGAAACGCGGATGAAAATCTTGGACAAATACCACTCACAGTCTGGAAAGAGGTTATGGGATGCCAAGCATGAGAACCTCTGCAATGAAGTGGATAGAGTCAAGAAAGACAATGATGGCATGCAAATTGAGCTTCGGCATTTGAAGGGGGAAGACATAACATCTCTGAACCATGTGGACCTGATGGCCTTAGAGGAAGCAATTGAAAATGGCCTTGCAAGTATCAGAGACAGAATGTCGAAGTACATGGACGCGGTTAGAGAAAATAACAGAGCTCTGGAGGACGAGAATAAGCGCCTCGCATATCAGCTGGTAAGTTCACAAAATGATGAAATCTGA
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
No domains found.

Protein Analysis

173

Amino Acids

19.84

Weight (kDa)

8.68

Isoelectric Point (pI)

49.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 10 - 57 4.6e-21 SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box PF01486 83 - 165 1.4e-17 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: OG0010638)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G58440
fragaria_vesca FvH4_2g32500 FvH4_2g32500 FvH4_2g32500
malus_domestica MD08G1076800.v1.1 MD15G1064100.v1.1
prunus_persica Prupe.1G418100_v2.0.a1 Prupe.1G418100_v2.0.a1
pyrus_communis pycom08g06360 pycom15g06080
rosa_chinensis RchiOBHm_Chr6g0310151
rosa_laevigata RLG00000010504
rosa_multiflora Rmu_sc0008163.1_g000004
rosa_roxburghii Rroxscaffold_7G00158810
rosa_rugosa Rorug06G0377700 Rorug06G0377800
rosa_samantha Rh6AG491900 Rh6BG501500 Rh6CG506600
rosa_wichuraiana Rw6G042800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 43
Acc36I ACCTGC 1 cut(s) 43
AccII CGCG 2 cut(s) 193, 437
AciI CCGC 3 cut(s) 177, 193, 437
AclWI GGATC 1 cut(s) 89
AfaI GTAC 1 cut(s) 428
AgsI TTSAA 4 cut(s) 35, 167, 328, 389
AhdI GACNNNNNGTC 1 cut(s) 418
AluBI AGCT 4 cut(s) 150, 316, 458, 493
AluI AGCT 4 cut(s) 150, 316, 458, 493
Alw21I GWGCWC 1 cut(s) 460
Alw26I GTCTC 1 cut(s) 405
AlwI GGATC 1 cut(s) 89
AoxI GGCC 3 cut(s) 178, 369, 394
ApeKI GCWGC 1 cut(s) 174
AspLEI GCGC 1 cut(s) 480
AspS9I GGNCC 2 cut(s) 179, 361
AsuHPI GGTGA 1 cut(s) 67
AsuNHI GCTAGC 1 cut(s) 146
AvaII GGWCC 1 cut(s) 361
AxyI CCTNAGG 1 cut(s) 183
BanII GRGCYC 1 cut(s) 460
BbsI GAAGAC 1 cut(s) 342
Bbv12I GWGCWC 1 cut(s) 460
BbvI GCAGC 1 cut(s) 186
BccI CCATC 2 cut(s) 293, 361
BcoDI GTCTC 1 cut(s) 405
BfaI CTAG 1 cut(s) 147
BfmI CTRYAG 1 cut(s) 172
BfoI RGCGCY 1 cut(s) 481
BfuAI ACCTGC 1 cut(s) 43
BisI GCNGC 2 cut(s) 175, 178
BlsI GCNGC 2 cut(s) 176, 179
Bme18I GGWCC 1 cut(s) 361
BmeRI GACNNNNNGTC 1 cut(s) 418
BmgT120I GGNCC 2 cut(s) 179, 361
BmsI GCATC 2 cut(s) 109, 235
BmtI GCTAGC 1 cut(s) 150
BpiI GAAGAC 1 cut(s) 342
BpmI CTGGAG 1 cut(s) 482
Bpu10I CCTNAGC 2 cut(s) 96, 123
BpuEI CTTGAG 1 cut(s) 25
BsaBI GATNNNNATC 1 cut(s) 200
Bse21I CCTNAGG 1 cut(s) 183
Bse3DI GCAATG 2 cut(s) 141, 274
Bse8I GATNNNNATC 1 cut(s) 200
BseGI GGATG 2 cut(s) 201, 250
BseJI GATNNNNATC 1 cut(s) 200
BseMI GCAATG 2 cut(s) 141, 274
BseMII CTCAG 1 cut(s) 197
BseXI GCAGC 1 cut(s) 186
Bsh1236I CGCG 2 cut(s) 193, 437
BshFI GGCC 3 cut(s) 180, 371, 396
BsiHKAI GWGCWC 1 cut(s) 460
BsmAI GTCTC 1 cut(s) 405
BsnI GGCC 3 cut(s) 180, 371, 396
Bsp1286I GDGCHC 1 cut(s) 460
Bsp143I GATC 1 cut(s) 81
BspACI CCGC 3 cut(s) 177, 193, 437
BspANI GGCC 3 cut(s) 180, 371, 396
BspCNI CTCAG 1 cut(s) 196
BspFNI CGCG 2 cut(s) 193, 437
BspMAI CTGCAG 1 cut(s) 176
BspMI ACCTGC 1 cut(s) 43
BspOI GCTAGC 1 cut(s) 150
BspPI GGATC 1 cut(s) 89
BsrDI GCAATG 2 cut(s) 141, 274
BssMI GATC 1 cut(s) 81
Bst4CI ACNGT 2 cut(s) 109, 225
BstC8I GCNNGC 2 cut(s) 148, 305
BstDEI CTNAG 5 cut(s) 66, 96, 123, 183, 373
BstEII GGTNACC 1 cut(s) 55
BstF5I GGATG 2 cut(s) 201, 250
BstFNI CGCG 2 cut(s) 193, 437
BstH2I RGCGCY 1 cut(s) 481
BstHHI GCGC 1 cut(s) 480
BstKTI GATC 1 cut(s) 84
BstMAI GTCTC 1 cut(s) 405
BstMBI GATC 1 cut(s) 81
BstMWI GCNNNNNNNGC 1 cut(s) 313
BstNSI RCATGY 1 cut(s) 307
BstPI GGTNACC 1 cut(s) 55
BstSFI CTRYAG 1 cut(s) 172
BstUI CGCG 2 cut(s) 193, 437
BstV1I GCAGC 1 cut(s) 186
BstV2I GAAGAC 1 cut(s) 342
Bsu36I CCTNAGG 1 cut(s) 183
BsuRI GGCC 3 cut(s) 180, 371, 396
BtsCI GGATG 2 cut(s) 201, 250
BtsIMutI CAGTG 1 cut(s) 105
BveI ACCTGC 1 cut(s) 43
Cac8I GCNNGC 2 cut(s) 148, 305
CfoI GCGC 1 cut(s) 480
Cfr13I GGNCC 2 cut(s) 179, 361
CseI GACGC 1 cut(s) 443
Csp6I GTAC 1 cut(s) 427
CviAII CATG 4 cut(s) 254, 304, 356, 430
CviJI RGCY 8 cut(s) 95, 150, 180, 316, 371, 396, 458, 493
CviKI_1 RGCY 8 cut(s) 95, 150, 180, 316, 371, 396, 458, 493
CviQI GTAC 1 cut(s) 427
DdeI CTNAG 5 cut(s) 66, 96, 123, 183, 373
DpnI GATC 1 cut(s) 83
DpnII GATC 1 cut(s) 81
DriI GACNNNNNGTC 1 cut(s) 418
Eam1105I GACNNNNNGTC 1 cut(s) 418
Ecl136II GAGCTC 1 cut(s) 458
Eco24I GRGCYC 1 cut(s) 460
Eco47I GGWCC 1 cut(s) 361
Eco53kI GAGCTC 1 cut(s) 458
Eco81I CCTNAGG 1 cut(s) 183
Eco91I GGTNACC 1 cut(s) 55
EcoICRI GAGCTC 1 cut(s) 458
EcoO65I GGTNACC 1 cut(s) 55
EcoT38I GRGCYC 1 cut(s) 460
FaeI CATG 4 cut(s) 257, 307, 359, 433
FaiI YATR 7 cut(s) 241, 255, 305, 341, 357, 431, 487
FatI CATG 4 cut(s) 253, 303, 355, 429
Fnu4HI GCNGC 2 cut(s) 175, 178
FokI GGATG 2 cut(s) 208, 257
FriOI GRGCYC 1 cut(s) 460
Fsp4HI GCNGC 2 cut(s) 175, 178
FspBI CTAG 1 cut(s) 147
GlaI GCGC 1 cut(s) 479
GluI GCNGC 2 cut(s) 175, 178
GsuI CTGGAG 1 cut(s) 482
HaeII RGCGCY 1 cut(s) 481
HaeIII GGCC 3 cut(s) 180, 371, 396
HgaI GACGC 1 cut(s) 443
HhaI GCGC 1 cut(s) 480
Hin1II CATG 4 cut(s) 257, 307, 359, 433
Hin6I GCGC 1 cut(s) 478
HinP1I GCGC 1 cut(s) 478
HinfI GANTC 1 cut(s) 282
HphI GGTGA 1 cut(s) 67
Hpy166II GTNNAC 2 cut(s) 361, 503
Hpy188I TCNGA 3 cut(s) 351, 410, 521
Hpy188III TCNNGA 5 cut(s) 153, 185, 228, 286, 461
Hpy8I GTNNAC 2 cut(s) 361, 503
HpyAV CCTTC 1 cut(s) 322
HpyCH4III ACNGT 2 cut(s) 109, 225
HpyCH4V TGCA 4 cut(s) 174, 267, 307, 401
HpyF10VI GCNNNNNNNGC 1 cut(s) 313
HpyF3I CTNAG 5 cut(s) 66, 96, 123, 183, 373
Hsp92II CATG 4 cut(s) 257, 307, 359, 433
HspAI GCGC 1 cut(s) 478
Kzo9I GATC 1 cut(s) 81
LpnPI CCDG 8 cut(s) 34, 38, 138, 170, 213, 377, 446, 479
Lsp1109I GCAGC 1 cut(s) 186
LweI GCATC 2 cut(s) 109, 235
MaeI CTAG 1 cut(s) 147
MaeIII GTNAC 1 cut(s) 55
MalI GATC 1 cut(s) 83
MboI GATC 1 cut(s) 81
MboII GAAGA 1 cut(s) 347
MfeI CAATTG 1 cut(s) 384
MhlI GDGCHC 1 cut(s) 460
MluCI AATT 2 cut(s) 309, 384
MlyI GAGTC 1 cut(s) 291
MnlI CCTC 7 cut(s) 21, 192, 228, 272, 370, 457, 491
MseI TTAA 1 cut(s) 24
MspA1I CMGCKG 2 cut(s) 177, 493
MunI CAATTG 1 cut(s) 384
MvnI CGCG 2 cut(s) 193, 437
MwoI GCNNNNNNNGC 1 cut(s) 313
NdeII GATC 1 cut(s) 81
NheI GCTAGC 1 cut(s) 146
NlaIII CATG 4 cut(s) 257, 307, 359, 433
NmuCI GTSAC 1 cut(s) 55
NspI RCATGY 1 cut(s) 307
PaeI GCATGC 1 cut(s) 307
PaqCI CACCTGC 1 cut(s) 43
PkrI GCNGC 2 cut(s) 176, 179
PleI GAGTC 1 cut(s) 290
PpsI GAGTC 1 cut(s) 290
Psp124BI GAGCTC 1 cut(s) 460
PspEI GGTNACC 1 cut(s) 55
PspPI GGNCC 2 cut(s) 179, 361
PstI CTGCAG 1 cut(s) 176
PvuII CAGCTG 1 cut(s) 493
RsaI GTAC 1 cut(s) 428
RsaNI GTAC 1 cut(s) 427
SacI GAGCTC 1 cut(s) 460
SaqAI TTAA 1 cut(s) 24
SatI GCNGC 2 cut(s) 175, 178
Sau3AI GATC 1 cut(s) 81
Sau96I GGNCC 2 cut(s) 179, 361
SchI GAGTC 1 cut(s) 291
SduI GDGCHC 1 cut(s) 460
SfaNI GCATC 2 cut(s) 109, 235
SfcI CTRYAG 1 cut(s) 172
SinI GGWCC 1 cut(s) 361
SmlI CTYRAG 1 cut(s) 40
SmoI CTYRAG 1 cut(s) 40
SphI GCATGC 1 cut(s) 307
Sse9I AATT 2 cut(s) 309, 384
SsiI CCGC 3 cut(s) 177, 193, 437
SspMI CTAG 1 cut(s) 147
SstI GAGCTC 1 cut(s) 460
TaaI ACNGT 2 cut(s) 109, 225
TaqI TCGA 1 cut(s) 422
TasI AATT 2 cut(s) 309, 384
TatI WGTACW 1 cut(s) 426
TauI GCSGC 1 cut(s) 180
Tru1I TTAA 1 cut(s) 24
Tru9I TTAA 1 cut(s) 24
TscAI CASTG 1 cut(s) 112
TseFI GTSAC 1 cut(s) 55
TseI GCWGC 1 cut(s) 174
Tsp45I GTSAC 1 cut(s) 55
TspDTI ATGAA 2 cut(s) 212, 285
TspRI CASTG 1 cut(s) 112
VpaK11BI GGWCC 1 cut(s) 361
XceI RCATGY 1 cut(s) 307
XcmI CCANNNNNNNNNTGG 1 cut(s) 224
XspI CTAG 1 cut(s) 147
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.