Rw6G042790

Helix-hairpin-helix DNA-binding motif class 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0013438
Physical Location & Seq
Reverse (-)
66198213 .. 66200074
1862 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G042790.1

Sequence Viewer

Length: 462 bp
ATGTTGGATTGTGAATTATTGAGGCCGAGGCTGTTGGATTTCGTTTCGGCATTGGACGAATCGGTGGTGAAATTGGCTTCAGAGAAGGCGTTTCGGTCGCTTCCTGATCTCTCAAAGGCGGTCTCTGAGCTCACTGTGCTGAAAGGAGTGGGACCGGCCACGGCCTCGGCTGTTCTGGCAGCTTATGCGCCGGATGTGGCGCCTTTCATGTCCGACGAGGCTATGGAGGCAGCTCTTGGAAATAGCAAGGACTATTCACTTAAGCAGTATCTGTTGTTTGCAGATAAGTTGCAGAAAAAAGCAAAGGAATTGAGTGCAGAAGGGGAAACCTTCACACCATCAGATGTAGAAAGGGCTCTATGGAGTTGTGCTGTGGGGGCCAAATTGCTATCTTCACAGTCAGATCCAGACCCCAAAGTCACTGATGAAACTAAAAACCCCAAGAGAAAGAGAAAGCGCTGA
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

153

Amino Acids

16.63

Weight (kDa)

6.36

Isoelectric Point (pI)

39.42

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: OG0013438)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G12210 AT3G12210
fragaria_vesca FvH4_2g32510
malus_domestica MD15G1064200.v1.1
prunus_persica Prupe.1G418200_v2.0.a1 Prupe.6G207800_v2.0.a1
pyrus_communis pycom15g06090
rosa_chinensis RchiOBHm_Chr6g0310141
rosa_laevigata RLG00000010505
rosa_multiflora Rmu_sc0000294.1_g000038 Rmu_sc0008163.1_g000003
rosa_roxburghii Rroxscaffold_7G00158820
rosa_rugosa Rorug06G0377700
rosa_samantha Rh6AG491800 Rh6BG501400 Rh6CG506500 Rh6DG492400
rosa_wichuraiana Rw6G042790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 416
AccB1I GGYRCC 1 cut(s) 199
AciI CCGC 1 cut(s) 119
AclWI GGATC 1 cut(s) 398
AcoI YGGCCR 1 cut(s) 156
AcuI CTGAAG 1 cut(s) 63
AcyI GRCGYC 1 cut(s) 200
AfeI AGCGCT 1 cut(s) 458
AflII CTTAAG 1 cut(s) 260
AluBI AGCT 3 cut(s) 130, 182, 233
AluI AGCT 3 cut(s) 130, 182, 233
Alw21I GWGCWC 1 cut(s) 132
Alw26I GTCTC 1 cut(s) 127
AlwI GGATC 1 cut(s) 398
AlwNI CAGNNNCTG 1 cut(s) 271
Aor51HI AGCGCT 1 cut(s) 458
AoxI GGCC 4 cut(s) 23, 156, 162, 378
ApeKI GCWGC 2 cut(s) 179, 230
AspLEI GCGC 3 cut(s) 190, 202, 459
AspS9I GGNCC 2 cut(s) 152, 378
AsuHPI GGTGA 1 cut(s) 79
AvaII GGWCC 1 cut(s) 152
BanI GGYRCC 1 cut(s) 199
BanII GRGCYC 2 cut(s) 132, 358
Bbv12I GWGCWC 1 cut(s) 132
BbvI GCAGC 2 cut(s) 191, 242
BccI CCATC 1 cut(s) 346
BceAI ACGGC 1 cut(s) 177
BcoDI GTCTC 1 cut(s) 127
BfoI RGCGCY 2 cut(s) 203, 460
BfrI CTTAAG 1 cut(s) 260
BisI GCNGC 2 cut(s) 180, 231
BlsI GCNGC 2 cut(s) 181, 232
Bme18I GGWCC 1 cut(s) 152
BmgT120I GGNCC 2 cut(s) 152, 378
BmiI GGNNCC 3 cut(s) 153, 201, 379
BsaHI GRCGYC 1 cut(s) 200
BsaI GGTCTC 1 cut(s) 127
BsaJI CCNNGG 3 cut(s) 26, 159, 165
Bse118I RCCGGY 1 cut(s) 154
BseDI CCNNGG 3 cut(s) 26, 159, 165
BseGI GGATG 1 cut(s) 199
BseMII CTCAG 1 cut(s) 117
BseXI GCAGC 2 cut(s) 191, 242
BsgI GTGCAG 1 cut(s) 336
Bsh1285I CGRYCG 1 cut(s) 98
BshFI GGCC 4 cut(s) 25, 158, 164, 380
BshNI GGYRCC 1 cut(s) 199
BsiEI CGRYCG 1 cut(s) 98
BsiHKAI GWGCWC 1 cut(s) 132
BsiSI CCGG 2 cut(s) 155, 191
BslFI GGGAC 1 cut(s) 165
BsmAI GTCTC 1 cut(s) 127
BsmFI GGGAC 1 cut(s) 165
BsnI GGCC 4 cut(s) 25, 158, 164, 380
Bso31I GGTCTC 1 cut(s) 127
Bsp1286I GDGCHC 2 cut(s) 132, 358
Bsp143I GATC 2 cut(s) 106, 403
BspACI CCGC 1 cut(s) 119
BspANI GGCC 4 cut(s) 25, 158, 164, 380
BspCNI CTCAG 1 cut(s) 118
BspLI GGNNCC 3 cut(s) 153, 201, 379
BspPI GGATC 1 cut(s) 398
BspT107I GGYRCC 1 cut(s) 199
BspTI CTTAAG 1 cut(s) 260
BspTNI GGTCTC 1 cut(s) 127
BsrFI RCCGGY 1 cut(s) 154
BssAI RCCGGY 1 cut(s) 154
BssECI CCNNGG 3 cut(s) 26, 159, 165
BssMI GATC 2 cut(s) 106, 403
BssNI GRCGYC 1 cut(s) 200
Bst4CI ACNGT 2 cut(s) 136, 399
BstACI GRCGYC 1 cut(s) 200
BstAFI CTTAAG 1 cut(s) 260
BstAPI GCANNNNNTGC 1 cut(s) 185
BstDEI CTNAG 1 cut(s) 126
BstDSI CCRYGG 1 cut(s) 159
BstF5I GGATG 1 cut(s) 199
BstH2I RGCGCY 2 cut(s) 203, 460
BstHHI GCGC 3 cut(s) 190, 202, 459
BstKTI GATC 2 cut(s) 109, 406
BstMAI GTCTC 1 cut(s) 127
BstMBI GATC 2 cut(s) 106, 403
BstMCI CGRYCG 1 cut(s) 98
BstMWI GCNNNNNNNGC 5 cut(s) 136, 176, 185, 227, 377
BstV1I GCAGC 2 cut(s) 191, 242
BstX2I RGATCY 1 cut(s) 403
BstYI RGATCY 1 cut(s) 403
BsuRI GGCC 4 cut(s) 25, 158, 164, 380
BtgI CCRYGG 1 cut(s) 159
BtsCI GGATG 1 cut(s) 199
BtsIMutI CAGTG 2 cut(s) 132, 420
CaiI CAGNNNCTG 1 cut(s) 271
CfoI GCGC 3 cut(s) 190, 202, 459
Cfr10I RCCGGY 1 cut(s) 154
Cfr13I GGNCC 2 cut(s) 152, 378
CviAII CATG 1 cut(s) 208
DdeI CTNAG 1 cut(s) 126
DinI GGCGCC 1 cut(s) 201
DpnI GATC 2 cut(s) 108, 405
DpnII GATC 2 cut(s) 106, 403
DrdI GACNNNNNNGTC 1 cut(s) 416
DseDI GACNNNNNNGTC 1 cut(s) 416
EaeI YGGCCR 1 cut(s) 156
Ecl136II GAGCTC 1 cut(s) 130
Eco24I GRGCYC 2 cut(s) 132, 358
Eco31I GGTCTC 1 cut(s) 127
Eco47I GGWCC 1 cut(s) 152
Eco47III AGCGCT 1 cut(s) 458
Eco53kI GAGCTC 1 cut(s) 130
Eco57I CTGAAG 1 cut(s) 63
EcoICRI GAGCTC 1 cut(s) 130
EcoT38I GRGCYC 2 cut(s) 132, 358
EgeI GGCGCC 1 cut(s) 201
EheI GGCGCC 1 cut(s) 201
FaeI CATG 1 cut(s) 211
FaiI YATR 4 cut(s) 186, 209, 224, 361
FaqI GGGAC 1 cut(s) 165
FatI CATG 1 cut(s) 207
Fnu4HI GCNGC 2 cut(s) 180, 231
FokI GGATG 1 cut(s) 206
FriOI GRGCYC 2 cut(s) 132, 358
Fsp4HI GCNGC 2 cut(s) 180, 231
GlaI GCGC 3 cut(s) 189, 201, 458
GluI GCNGC 2 cut(s) 180, 231
HaeII RGCGCY 2 cut(s) 203, 460
HaeIII GGCC 4 cut(s) 25, 158, 164, 380
HapII CCGG 2 cut(s) 155, 191
HhaI GCGC 3 cut(s) 190, 202, 459
Hin1I GRCGYC 1 cut(s) 200
Hin1II CATG 1 cut(s) 211
Hin6I GCGC 3 cut(s) 188, 200, 457
HinP1I GCGC 3 cut(s) 188, 200, 457
HinfI GANTC 1 cut(s) 59
HpaII CCGG 2 cut(s) 155, 191
HphI GGTGA 1 cut(s) 79
Hpy188I TCNGA 5 cut(s) 82, 127, 214, 343, 403
Hpy188III TCNNGA 2 cut(s) 104, 407
Hpy99I CGWCG 1 cut(s) 218
HpyAV CCTTC 3 cut(s) 79, 314, 340
HpyCH4III ACNGT 2 cut(s) 136, 399
HpyCH4V TGCA 3 cut(s) 281, 292, 317
HpyF10VI GCNNNNNNNGC 5 cut(s) 136, 176, 185, 227, 377
HpyF3I CTNAG 1 cut(s) 126
Hsp92I GRCGYC 1 cut(s) 200
Hsp92II CATG 1 cut(s) 211
HspAI GCGC 3 cut(s) 188, 200, 457
KasI GGCGCC 1 cut(s) 199
Kzo9I GATC 2 cut(s) 106, 403
LpnPI CCDG 5 cut(s) 117, 161, 168, 204, 420
Lsp1109I GCAGC 2 cut(s) 191, 242
MaeIII GTNAC 1 cut(s) 418
MalI GATC 2 cut(s) 108, 405
MboI GATC 2 cut(s) 106, 403
MboII GAAGA 1 cut(s) 384
MflI RGATCY 1 cut(s) 403
MhlI GDGCHC 2 cut(s) 132, 358
MluCI AATT 4 cut(s) 14, 71, 308, 383
Mly113I GGCGCC 1 cut(s) 200
MmeI TCCRAC 2 cut(s) 15, 237
MnlI CCTC 5 cut(s) 15, 21, 175, 211, 220
MseI TTAA 1 cut(s) 261
MspCI CTTAAG 1 cut(s) 260
MspI CCGG 2 cut(s) 155, 191
MwoI GCNNNNNNNGC 5 cut(s) 136, 176, 185, 227, 377
NarI GGCGCC 1 cut(s) 200
NdeII GATC 2 cut(s) 106, 403
NlaIII CATG 1 cut(s) 211
NlaIV GGNNCC 3 cut(s) 153, 201, 379
NmeAIII GCCGAG 2 cut(s) 51, 146
NmuCI GTSAC 1 cut(s) 418
PfeI GAWTC 1 cut(s) 59
PkrI GCNGC 2 cut(s) 181, 232
PluTI GGCGCC 1 cut(s) 203
Psp124BI GAGCTC 1 cut(s) 132
PspN4I GGNNCC 3 cut(s) 153, 201, 379
PspPI GGNCC 2 cut(s) 152, 378
PstNI CAGNNNCTG 1 cut(s) 271
PsuI RGATCY 1 cut(s) 403
SacI GAGCTC 1 cut(s) 132
SaqAI TTAA 1 cut(s) 261
SatI GCNGC 2 cut(s) 180, 231
Sau3AI GATC 2 cut(s) 106, 403
Sau96I GGNCC 2 cut(s) 152, 378
SduI GDGCHC 2 cut(s) 132, 358
SetI ASST 4 cut(s) 132, 184, 235, 332
SfoI GGCGCC 1 cut(s) 201
SinI GGWCC 1 cut(s) 152
SmlI CTYRAG 1 cut(s) 260
SmoI CTYRAG 1 cut(s) 260
Sse9I AATT 4 cut(s) 14, 71, 308, 383
SsiI CCGC 1 cut(s) 119
SspDI GGCGCC 1 cut(s) 199
SstI GAGCTC 1 cut(s) 132
TaaI ACNGT 2 cut(s) 136, 399
TaqII GACCGA 1 cut(s) 84
TasI AATT 4 cut(s) 14, 71, 308, 383
TfiI GAWTC 1 cut(s) 59
Tru1I TTAA 1 cut(s) 261
Tru9I TTAA 1 cut(s) 261
TscAI CASTG 2 cut(s) 139, 427
TseFI GTSAC 1 cut(s) 418
TseI GCWGC 2 cut(s) 179, 230
Tsp45I GTSAC 1 cut(s) 418
TspDTI ATGAA 2 cut(s) 196, 441
TspRI CASTG 2 cut(s) 139, 427
Vha464I CTTAAG 1 cut(s) 260
VpaK11BI GGWCC 1 cut(s) 152
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.