RLG00000010505

Helix-hairpin-helix DNA-binding motif class 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0013438
Physical Location & Seq
Forward (+)
2187949 .. 2190565
2617 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000010505

Sequence Viewer

Length: 657 bp
ATGGAATTCGAGTGTGCTTCTCTCAGTCTCTGGAAGGAAGCCCTCTCTTCCTACTCATCTCGCATAGAATCTCTCAACAAACCCGATTTGATTTCCCTGGACGACTTTTACCGGAACCAGCTCCCTCCTCTCCTCCGCCACCGGAACCCTAACCCCCACCTCACCACCTCCGAGCTCTCCGATCTCATGCGCTGGAAGCTCACACGTGGCAAGTGGCGGCCGAGGCTGTTGGATTTCGTTTCGGCATTGGACGAATCGGTGGTGAAATTGGCTTCAGAGAAGGCGTTTCGGTCGCTTCCTGATCTCTCAAAGGCGGTCTCTGAGCTCACTGTGCTGAAAGGAGTGGGACCGGCCACGGCCTCGGCTGTTCTGGCAGCTTATGCGCCGGACGTGGCGCCTTTCATGTCCGACGAGGCTATGGAGGCAGCTCTTGGTAATAGCAAGGACTATTCACTTAAGCAGTATCTGTTGTTTGCAGATAAGTTGCAGACAAAAGCAAAGGAATTGAGTGCAGAAGGGGAAACCTTCACACCATCAGATGTAGAAAGGGCTCTATGGAGTTGTGCTGTGGGGGCCAAATTGCTATCTTCACAGTCAGATCCAGACCCCAAAGTCACTGATAAAACTAAAAACCCCAAGAGAAAGAGAAAGCGCTGA
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

219

Amino Acids

24.3

Weight (kDa)

8.95

Isoelectric Point (pI)

44.85

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) 611
AccB1I GGYRCC 1 cut(s) 394
AciI CCGC 3 cut(s) 136, 217, 314
AclWI GGATC 1 cut(s) 593
AcoI YGGCCR 2 cut(s) 218, 351
AcsI RAATTY 1 cut(s) 5
AcuI CTGAAG 1 cut(s) 258
AcvI CACGTG 1 cut(s) 206
AcyI GRCGYC 1 cut(s) 395
AfeI AGCGCT 1 cut(s) 653
AflII CTTAAG 1 cut(s) 455
AflIII ACRYGT 1 cut(s) 203
AjiI CACGTC 1 cut(s) 391
AjnI CCWGG 1 cut(s) 96
AluBI AGCT 6 cut(s) 121, 175, 199, 325, 377, 428
AluI AGCT 6 cut(s) 121, 175, 199, 325, 377, 428
Alw21I GWGCWC 2 cut(s) 177, 327
Alw26I GTCTC 2 cut(s) 32, 322
AlwI GGATC 1 cut(s) 593
AlwNI CAGNNNCTG 2 cut(s) 30, 466
Aor51HI AGCGCT 1 cut(s) 653
AoxI GGCC 4 cut(s) 218, 351, 357, 573
ApeKI GCWGC 2 cut(s) 374, 425
ApoI RAATTY 1 cut(s) 5
AspLEI GCGC 4 cut(s) 192, 385, 397, 654
AspS9I GGNCC 2 cut(s) 347, 573
AsuHPI GGTGA 2 cut(s) 154, 274
AvaII GGWCC 1 cut(s) 347
BanI GGYRCC 1 cut(s) 394
BanII GRGCYC 3 cut(s) 177, 327, 553
BbrPI CACGTG 1 cut(s) 206
Bbv12I GWGCWC 2 cut(s) 177, 327
BbvI GCAGC 2 cut(s) 386, 437
BccI CCATC 1 cut(s) 541
BceAI ACGGC 1 cut(s) 372
BciT130I CCWGG 1 cut(s) 98
BcoDI GTCTC 2 cut(s) 32, 322
BfoI RGCGCY 2 cut(s) 398, 655
BfrI CTTAAG 1 cut(s) 455
BisI GCNGC 3 cut(s) 218, 375, 426
BlsI GCNGC 3 cut(s) 219, 376, 427
Bme1390I CCNGG 1 cut(s) 98
Bme18I GGWCC 1 cut(s) 347
BmgBI CACGTC 1 cut(s) 391
BmgT120I GGNCC 2 cut(s) 347, 573
BmiI GGNNCC 5 cut(s) 116, 146, 348, 396, 574
BmrFI CCNGG 1 cut(s) 98
BsaAI YACGTR 1 cut(s) 206
BsaHI GRCGYC 1 cut(s) 395
BsaI GGTCTC 1 cut(s) 322
BsaJI CCNNGG 4 cut(s) 96, 221, 354, 360
BsaWI WCCGGW 2 cut(s) 111, 141
Bse118I RCCGGY 1 cut(s) 349
BseBI CCWGG 1 cut(s) 98
BseDI CCNNGG 4 cut(s) 96, 221, 354, 360
BseMII CTCAG 2 cut(s) 37, 312
BseRI GAGGAG 2 cut(s) 117, 122
BseX3I CGGCCG 1 cut(s) 218
BseXI GCAGC 2 cut(s) 386, 437
BsgI GTGCAG 1 cut(s) 531
Bsh1285I CGRYCG 2 cut(s) 221, 293
BshFI GGCC 4 cut(s) 220, 353, 359, 575
BshNI GGYRCC 1 cut(s) 394
BsiEI CGRYCG 2 cut(s) 221, 293
BsiHKAI GWGCWC 2 cut(s) 177, 327
BsiSI CCGG 4 cut(s) 112, 142, 350, 386
BslFI GGGAC 1 cut(s) 360
BsmAI GTCTC 2 cut(s) 32, 322
BsmFI GGGAC 1 cut(s) 360
BsnI GGCC 4 cut(s) 220, 353, 359, 575
Bso31I GGTCTC 1 cut(s) 322
Bsp1286I GDGCHC 3 cut(s) 177, 327, 553
Bsp143I GATC 3 cut(s) 181, 301, 598
BspACI CCGC 3 cut(s) 136, 217, 314
BspANI GGCC 4 cut(s) 220, 353, 359, 575
BspCNI CTCAG 2 cut(s) 36, 313
BspLI GGNNCC 5 cut(s) 116, 146, 348, 396, 574
BspPI GGATC 1 cut(s) 593
BspT107I GGYRCC 1 cut(s) 394
BspTI CTTAAG 1 cut(s) 455
BspTNI GGTCTC 1 cut(s) 322
BsrFI RCCGGY 1 cut(s) 349
BssAI RCCGGY 1 cut(s) 349
BssECI CCNNGG 4 cut(s) 96, 221, 354, 360
BssMI GATC 3 cut(s) 181, 301, 598
BssNI GRCGYC 1 cut(s) 395
Bst2UI CCWGG 1 cut(s) 98
Bst4CI ACNGT 2 cut(s) 331, 594
Bst6I CTCTTC 1 cut(s) 52
BstACI GRCGYC 1 cut(s) 395
BstAFI CTTAAG 1 cut(s) 455
BstAPI GCANNNNNTGC 1 cut(s) 380
BstBAI YACGTR 1 cut(s) 206
BstDEI CTNAG 2 cut(s) 23, 321
BstDSI CCRYGG 1 cut(s) 354
BstH2I RGCGCY 2 cut(s) 398, 655
BstHHI GCGC 4 cut(s) 192, 385, 397, 654
BstKTI GATC 3 cut(s) 184, 304, 601
BstMAI GTCTC 2 cut(s) 32, 322
BstMBI GATC 3 cut(s) 181, 301, 598
BstMCI CGRYCG 2 cut(s) 221, 293
BstMWI GCNNNNNNNGC 7 cut(s) 196, 223, 331, 371, 380, 422, 572
BstNI CCWGG 1 cut(s) 98
BstSCI CCNGG 1 cut(s) 96
BstV1I GCAGC 2 cut(s) 386, 437
BstX2I RGATCY 1 cut(s) 598
BstYI RGATCY 1 cut(s) 598
BstZI CGGCCG 1 cut(s) 218
BsuRI GGCC 4 cut(s) 220, 353, 359, 575
BtgI CCRYGG 1 cut(s) 354
BtrI CACGTC 1 cut(s) 391
BtsIMutI CAGTG 2 cut(s) 327, 615
CaiI CAGNNNCTG 2 cut(s) 30, 466
CfoI GCGC 4 cut(s) 192, 385, 397, 654
Cfr10I RCCGGY 1 cut(s) 349
Cfr13I GGNCC 2 cut(s) 347, 573
CviAII CATG 2 cut(s) 187, 403
DdeI CTNAG 2 cut(s) 23, 321
DinI GGCGCC 1 cut(s) 396
DpnI GATC 3 cut(s) 183, 303, 600
DpnII GATC 3 cut(s) 181, 301, 598
DrdI GACNNNNNNGTC 1 cut(s) 611
DseDI GACNNNNNNGTC 1 cut(s) 611
EaeI YGGCCR 2 cut(s) 218, 351
EagI CGGCCG 1 cut(s) 218
Eam1104I CTCTTC 1 cut(s) 52
EarI CTCTTC 1 cut(s) 52
EciI GGCGGA 1 cut(s) 125
Ecl136II GAGCTC 2 cut(s) 175, 325
EclXI CGGCCG 1 cut(s) 218
Eco24I GRGCYC 3 cut(s) 177, 327, 553
Eco31I GGTCTC 1 cut(s) 322
Eco47I GGWCC 1 cut(s) 347
Eco47III AGCGCT 1 cut(s) 653
Eco52I CGGCCG 1 cut(s) 218
Eco53kI GAGCTC 2 cut(s) 175, 325
Eco57I CTGAAG 1 cut(s) 258
Eco72I CACGTG 1 cut(s) 206
EcoICRI GAGCTC 2 cut(s) 175, 325
EcoRI GAATTC 1 cut(s) 5
EcoRII CCWGG 1 cut(s) 96
EcoT38I GRGCYC 3 cut(s) 177, 327, 553
EgeI GGCGCC 1 cut(s) 396
EheI GGCGCC 1 cut(s) 396
FaeI CATG 2 cut(s) 190, 406
FaiI YATR 6 cut(s) 65, 188, 381, 404, 419, 556
FaqI GGGAC 1 cut(s) 360
FatI CATG 2 cut(s) 186, 402
Fnu4HI GCNGC 3 cut(s) 218, 375, 426
FriOI GRGCYC 3 cut(s) 177, 327, 553
Fsp4HI GCNGC 3 cut(s) 218, 375, 426
GlaI GCGC 4 cut(s) 191, 384, 396, 653
GluI GCNGC 3 cut(s) 218, 375, 426
HaeII RGCGCY 2 cut(s) 398, 655
HaeIII GGCC 4 cut(s) 220, 353, 359, 575
HapII CCGG 4 cut(s) 112, 142, 350, 386
HhaI GCGC 4 cut(s) 192, 385, 397, 654
Hin1I GRCGYC 1 cut(s) 395
Hin1II CATG 2 cut(s) 190, 406
Hin6I GCGC 4 cut(s) 190, 383, 395, 652
HinP1I GCGC 4 cut(s) 190, 383, 395, 652
HinfI GANTC 2 cut(s) 68, 254
HpaII CCGG 4 cut(s) 112, 142, 350, 386
HphI GGTGA 2 cut(s) 154, 274
Hpy188I TCNGA 7 cut(s) 172, 181, 277, 322, 409, 538, 598
Hpy188III TCNNGA 3 cut(s) 31, 299, 602
Hpy99I CGWCG 1 cut(s) 413
HpyAV CCTTC 4 cut(s) 28, 274, 509, 535
HpyCH4III ACNGT 2 cut(s) 331, 594
HpyCH4IV ACGT 2 cut(s) 205, 390
HpyCH4V TGCA 3 cut(s) 476, 487, 512
HpyF10VI GCNNNNNNNGC 7 cut(s) 196, 223, 331, 371, 380, 422, 572
HpyF3I CTNAG 2 cut(s) 23, 321
HpySE526I ACGT 2 cut(s) 205, 390
Hsp92I GRCGYC 1 cut(s) 395
Hsp92II CATG 2 cut(s) 190, 406
HspAI GCGC 4 cut(s) 190, 383, 395, 652
KasI GGCGCC 1 cut(s) 394
Kzo9I GATC 3 cut(s) 181, 301, 598
LmnI GCTCC 1 cut(s) 126
Lsp1109I GCAGC 2 cut(s) 386, 437
MaeII ACGT 2 cut(s) 205, 390
MaeIII GTNAC 1 cut(s) 613
MalI GATC 3 cut(s) 183, 303, 600
MboI GATC 3 cut(s) 181, 301, 598
MboII GAAGA 2 cut(s) 39, 579
MflI RGATCY 1 cut(s) 598
MhlI GDGCHC 3 cut(s) 177, 327, 553
MluCI AATT 4 cut(s) 5, 266, 503, 578
Mly113I GGCGCC 1 cut(s) 395
MmeI TCCRAC 2 cut(s) 210, 432
MseI TTAA 1 cut(s) 456
MspCI CTTAAG 1 cut(s) 455
MspI CCGG 4 cut(s) 112, 142, 350, 386
MspR9I CCNGG 1 cut(s) 98
MvaI CCWGG 1 cut(s) 98
MwoI GCNNNNNNNGC 7 cut(s) 196, 223, 331, 371, 380, 422, 572
NarI GGCGCC 1 cut(s) 395
NdeII GATC 3 cut(s) 181, 301, 598
NlaIII CATG 2 cut(s) 190, 406
NlaIV GGNNCC 5 cut(s) 116, 146, 348, 396, 574
NmeAIII GCCGAG 2 cut(s) 246, 341
NmuCI GTSAC 1 cut(s) 613
PfeI GAWTC 2 cut(s) 68, 254
PkrI GCNGC 3 cut(s) 219, 376, 427
PluTI GGCGCC 1 cut(s) 398
PmaCI CACGTG 1 cut(s) 206
PmlI CACGTG 1 cut(s) 206
Ppu21I YACGTR 1 cut(s) 206
Psp124BI GAGCTC 2 cut(s) 177, 327
Psp6I CCWGG 1 cut(s) 96
PspCI CACGTG 1 cut(s) 206
PspGI CCWGG 1 cut(s) 96
PspN4I GGNNCC 5 cut(s) 116, 146, 348, 396, 574
PspPI GGNCC 2 cut(s) 347, 573
PstNI CAGNNNCTG 2 cut(s) 30, 466
PsuI RGATCY 1 cut(s) 598
SacI GAGCTC 2 cut(s) 177, 327
SaqAI TTAA 1 cut(s) 456
SatI GCNGC 3 cut(s) 218, 375, 426
Sau3AI GATC 3 cut(s) 181, 301, 598
Sau96I GGNCC 2 cut(s) 347, 573
ScrFI CCNGG 1 cut(s) 98
SduI GDGCHC 3 cut(s) 177, 327, 553
SfoI GGCGCC 1 cut(s) 396
SinI GGWCC 1 cut(s) 347
SmlI CTYRAG 1 cut(s) 455
SmoI CTYRAG 1 cut(s) 455
Sse9I AATT 4 cut(s) 5, 266, 503, 578
SsiI CCGC 3 cut(s) 136, 217, 314
SspDI GGCGCC 1 cut(s) 394
SstI GAGCTC 2 cut(s) 177, 327
StyD4I CCNGG 1 cut(s) 96
TaaI ACNGT 2 cut(s) 331, 594
TaiI ACGT 2 cut(s) 208, 393
TaqI TCGA 1 cut(s) 9
TaqII GACCGA 1 cut(s) 279
TasI AATT 4 cut(s) 5, 266, 503, 578
TauI GCSGC 1 cut(s) 220
TfiI GAWTC 2 cut(s) 68, 254
Tru1I TTAA 1 cut(s) 456
Tru9I TTAA 1 cut(s) 456
TscAI CASTG 2 cut(s) 334, 622
TseFI GTSAC 1 cut(s) 613
TseI GCWGC 2 cut(s) 374, 425
Tsp45I GTSAC 1 cut(s) 613
TspDTI ATGAA 1 cut(s) 391
TspRI CASTG 2 cut(s) 334, 622
Vha464I CTTAAG 1 cut(s) 455
VpaK11BI GGWCC 1 cut(s) 347
XapI RAATTY 1 cut(s) 5
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.