Rorug06G0365300

helix loop helix domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0006234
Physical Location & Seq
Forward (+)
51287991 .. 51290180
2190 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0365300.1

Sequence Viewer

Length: 1008 bp
ATGTCTCTGAGTCCTCCTCGTCCTGAAAACAACTCTGAGGCTAGGCCAATCTACCAGGTCTACTGGTGCTACCAATGCCAAAGGCAGGTCAGGATCGCCTCCACTCCTGACCCAGTCGTCTGCCCGCGCTGTTTCGGGCAGTTCCTCCTCGAAATGGACACCACATTCAGGCCCAGTCGACGCTTCATCGACTTCACAGACTTCGAATCCACCCCAGAAGCGCGTTTGCTAGAAGCGCTTTCCCTCATGCTCGACCCGTCCATCCGGCTTTTCGATAGCGGAGCACTCCAATCGGAACCCGAAACCCGACGTTCCCGCCCAACCAGGCGTAGAAGAAACCGTAGCTTCGATGATGACATAGAGCGCGGGGACCCGACCCACCCTGAACTCGGTACCCGAAACCGACCCGGGACGTGGATCATAGTACGACCCATCGACGACGATCCGATTCAACCCTTTCGCAGATCAAGAGGTAATCAAAACCCGGTTTTACCGGTACCACGTGGAGTGGATCCGGGAAACTACTTTTTCGGGTCGGGGCTCCAGGGGCTCATCGAGGAGCTGACCCAAAACGACCGACCCGGACCGCCTCCCGTACCCGAAACGGCAATCAACTCAATCCCAACCGTTAAGATTAGCGAGGCCCATTTGAGCAACGACCCGAATTGTCCTATTTGCATGGAGGAGTTTAAGGTGGGGGGAGAAGCGAGAGAGCTGCCATGCAAGCATATATACCACGATGAATGCATTGTGCCGTGGCTGAGGCTTCACAATTCTTGCCCGGTTTGCCGGGTTGAGATTCCTATTTCGACTGATGAGGAATCGGAGGGTTCGAACAGCGGTGGAGGGAGGAGGGGGCGGCGGGGCATGAGGTGGAGTCGGCTCGGGTCTTTGTGGCCGTTTCGGAGGAGATATCGCCGGATTCCGGTTCAGGGCGGAAATGATGATGATCATGGTGACACTTCGAGAGTTGTCAACCCATGGTGGCATTCTTGCTCTATTCTTTAG
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
HLH

Protein Analysis

335

Amino Acids

38.37

Weight (kDa)

7.04

Isoelectric Point (pI)

73.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zn_ribbon_19 PF14369 20 - 52 1.9e-12 zinc-ribbon
zf-RING_2 PF13639 222 - 264 8.2e-15 Ring finger domain
zf-RING_11 PF17123 222 - 250 1.9e-10 RING-like zinc finger
zf-C3HC4_2 PF13923 222 - 263 5.4e-10 Zinc finger, C3HC4 type (RING finger)
zf-C3HC4 PF00097 223 - 263 3.8e-07 Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX PF13445 223 - 261 1.7e-06 RING-type zinc-finger
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 116
Acc36I ACCTGC 1 cut(s) 76
Acc65I GGTACC 2 cut(s) 392, 496
AccB1I GGYRCC 2 cut(s) 392, 496
AccI GTMKAC 2 cut(s) 60, 178
AccII CGCG 3 cut(s) 127, 223, 366
AciI CCGC 9 cut(s) 125, 279, 316, 366, 587, 840, 859, 862, 936
AclWI GGATC 5 cut(s) 101, 425, 437, 506, 519
AcoI YGGCCR 1 cut(s) 896
AcvI CACGTG 1 cut(s) 503
AfaI GTAC 4 cut(s) 394, 426, 498, 597
AfeI AGCGCT 1 cut(s) 237
AfiI CCNNNNNNNGG 7 cut(s) 85, 154, 168, 389, 414, 925, 932
AgeI ACCGGT 1 cut(s) 493
AgsI TTSAA 1 cut(s) 452
AjiI CACGTC 1 cut(s) 414
AjnI CCWGG 3 cut(s) 54, 323, 543
AluBI AGCT 3 cut(s) 345, 562, 715
AluI AGCT 3 cut(s) 345, 562, 715
Alw21I GWGCWC 1 cut(s) 286
Alw26I GTCTC 1 cut(s) 9
AlwI GGATC 5 cut(s) 101, 425, 437, 506, 519
Ama87I CYCGRG 2 cut(s) 407, 884
Aor51HI AGCGCT 1 cut(s) 237
AoxI GGCC 4 cut(s) 44, 170, 642, 896
ApeKI GCWGC 1 cut(s) 715
AsiGI ACCGGT 1 cut(s) 493
Asp718I GGTACC 2 cut(s) 392, 496
AspLEI GCGC 4 cut(s) 129, 223, 238, 366
AspS9I GGNCC 4 cut(s) 171, 370, 584, 643
AsuC2I CCSGG 7 cut(s) 408, 409, 485, 516, 582, 782, 791
AsuHPI GGTGA 1 cut(s) 968
AsuII TTCGAA 2 cut(s) 204, 833
AvaI CYCGRG 2 cut(s) 407, 884
AvaII GGWCC 2 cut(s) 370, 584
BamHI GGATCC 1 cut(s) 511
BanI GGYRCC 2 cut(s) 392, 496
BanII GRGCYC 2 cut(s) 543, 552
BbrPI CACGTG 1 cut(s) 503
Bbv12I GWGCWC 1 cut(s) 286
BbvCI CCTCAGC 1 cut(s) 761
BbvI GCAGC 1 cut(s) 702
BccI CCATC 2 cut(s) 269, 440
BceAI ACGGC 3 cut(s) 621, 739, 883
BcgI CGANNNNNNTGC 4 cut(s) 273, 307, 697, 731
BciT130I CCWGG 3 cut(s) 56, 325, 545
BclI TGATCA 1 cut(s) 949
BcnI CCSGG 7 cut(s) 408, 409, 485, 516, 582, 782, 791
BcoDI GTCTC 1 cut(s) 9
BfaI CTAG 2 cut(s) 42, 230
BfoI RGCGCY 1 cut(s) 239
BfuAI ACCTGC 1 cut(s) 76
BisI GCNGC 2 cut(s) 716, 860
BlsI GCNGC 2 cut(s) 717, 861
Bme18I GGWCC 2 cut(s) 370, 584
BmeT110I CYCGRG 2 cut(s) 407, 884
BmgBI CACGTC 1 cut(s) 414
BmgT120I GGNCC 4 cut(s) 171, 370, 584, 643
BmiI GGNNCC 7 cut(s) 297, 371, 372, 394, 498, 513, 542
BmrI ACTGGG 2 cut(s) 107, 168
BmuI ACTGGG 2 cut(s) 107, 168
BplI GAGNNNNNCTC 1 cut(s) 33
BpmI CTGGAG 1 cut(s) 527
Bpu10I CCTNAGC 1 cut(s) 761
Bpu14I TTCGAA 2 cut(s) 204, 833
BpuMI CCSGG 7 cut(s) 408, 409, 485, 516, 582, 782, 791
BsaAI YACGTR 1 cut(s) 503
BsaBI GATNNNNATC 1 cut(s) 948
BsaJI CCNNGG 4 cut(s) 407, 544, 755, 980
BsaWI WCCGGW 2 cut(s) 493, 925
Bsc4I CCNNNNNNNGG 7 cut(s) 85, 154, 168, 389, 414, 925, 932
Bse118I RCCGGY 1 cut(s) 493
Bse1I ACTGG 3 cut(s) 68, 113, 174
Bse8I GATNNNNATC 1 cut(s) 948
BseBI CCWGG 3 cut(s) 56, 325, 545
BseDI CCNNGG 4 cut(s) 407, 544, 755, 980
BseGI GGATG 1 cut(s) 261
BseJI GATNNNNATC 1 cut(s) 948
BseLI CCNNNNNNNGG 7 cut(s) 85, 154, 168, 389, 414, 925, 932
BseMII CTCAG 2 cut(s) 27, 752
BseNI ACTGG 3 cut(s) 68, 113, 174
BseRI GAGGAG 6 cut(s) 6, 137, 572, 698, 865, 922
BseXI GCAGC 1 cut(s) 702
Bsh1236I CGCG 3 cut(s) 127, 223, 366
Bsh1285I CGRYCG 1 cut(s) 577
BshFI GGCC 4 cut(s) 46, 172, 644, 898
BshNI GGYRCC 2 cut(s) 392, 496
BshTI ACCGGT 1 cut(s) 493
BsiEI CGRYCG 1 cut(s) 577
BsiHKAI GWGCWC 1 cut(s) 286
BsiHKCI CYCGRG 2 cut(s) 407, 884
BslFI GGGAC 2 cut(s) 383, 424
BslI CCNNNNNNNGG 7 cut(s) 85, 154, 168, 389, 414, 925, 932
BsmAI GTCTC 1 cut(s) 9
BsmFI GGGAC 2 cut(s) 383, 424
BsmI GAATGC 2 cut(s) 749, 988
BsnI GGCC 4 cut(s) 46, 172, 644, 898
BsoBI CYCGRG 2 cut(s) 407, 884
Bsp119I TTCGAA 2 cut(s) 204, 833
Bsp1286I GDGCHC 3 cut(s) 286, 543, 552
Bsp143I GATC 6 cut(s) 93, 417, 442, 464, 511, 949
Bsp19I CCATGG 1 cut(s) 980
BspACI CCGC 9 cut(s) 125, 279, 316, 366, 587, 840, 859, 862, 936
BspANI GGCC 4 cut(s) 46, 172, 644, 898
BspCNI CTCAG 2 cut(s) 28, 753
BspFNI CGCG 3 cut(s) 127, 223, 366
BspLI GGNNCC 7 cut(s) 297, 371, 372, 394, 498, 513, 542
BspMI ACCTGC 1 cut(s) 76
BspPI GGATC 5 cut(s) 101, 425, 437, 506, 519
BspT104I TTCGAA 2 cut(s) 204, 833
BspT107I GGYRCC 2 cut(s) 392, 496
BsrFI RCCGGY 1 cut(s) 493
BsrI ACTGG 3 cut(s) 68, 113, 174
BssAI RCCGGY 1 cut(s) 493
BssECI CCNNGG 4 cut(s) 407, 544, 755, 980
BssMI GATC 6 cut(s) 93, 417, 442, 464, 511, 949
BssT1I CCWWGG 1 cut(s) 980
Bst2UI CCWGG 3 cut(s) 56, 325, 545
Bst4CI ACNGT 2 cut(s) 341, 628
BstBAI YACGTR 1 cut(s) 503
BstBI TTCGAA 2 cut(s) 204, 833
BstC8I GCNNGC 2 cut(s) 125, 725
BstDEI CTNAG 3 cut(s) 8, 36, 761
BstDSI CCRYGG 2 cut(s) 755, 980
BstF5I GGATG 1 cut(s) 261
BstFNI CGCG 3 cut(s) 127, 223, 366
BstH2I RGCGCY 1 cut(s) 239
BstHHI GCGC 4 cut(s) 129, 223, 238, 366
BstKTI GATC 6 cut(s) 96, 420, 445, 467, 514, 952
BstMAI GTCTC 1 cut(s) 9
BstMBI GATC 6 cut(s) 93, 417, 442, 464, 511, 949
BstMCI CGRYCG 1 cut(s) 577
BstMWI GCNNNNNNNGC 5 cut(s) 75, 235, 547, 724, 786
BstNI CCWGG 3 cut(s) 56, 325, 545
BstUI CGCG 3 cut(s) 127, 223, 366
BstV1I GCAGC 1 cut(s) 702
BstX2I RGATCY 1 cut(s) 511
BstYI RGATCY 1 cut(s) 511
BsuRI GGCC 4 cut(s) 46, 172, 644, 898
BtgI CCRYGG 2 cut(s) 755, 980
BtrI CACGTC 1 cut(s) 414
BtsCI GGATG 1 cut(s) 261
BveI ACCTGC 1 cut(s) 76
Cac8I GCNNGC 2 cut(s) 125, 725
CfoI GCGC 4 cut(s) 129, 223, 238, 366
Cfr10I RCCGGY 1 cut(s) 493
Cfr13I GGNCC 4 cut(s) 171, 370, 584, 643
Cfr9I CCCGGG 1 cut(s) 407
CpoI CGGWCCG 1 cut(s) 584
CseI GACGC 1 cut(s) 189
CsiI ACCWGGT 1 cut(s) 54
Csp6I GTAC 4 cut(s) 393, 425, 497, 596
CspAI ACCGGT 1 cut(s) 493
CspI CGGWCCG 1 cut(s) 584
CviAII CATG 6 cut(s) 247, 679, 720, 868, 953, 981
CviQI GTAC 4 cut(s) 393, 425, 497, 596
DdeI CTNAG 3 cut(s) 8, 36, 761
DpnI GATC 6 cut(s) 95, 419, 444, 466, 513, 951
DpnII GATC 6 cut(s) 93, 417, 442, 464, 511, 949
DrdI GACNNNNNNGTC 1 cut(s) 116
DseDI GACNNNNNNGTC 1 cut(s) 116
EaeI YGGCCR 1 cut(s) 896
EciI GGCGGA 1 cut(s) 951
Eco130I CCWWGG 1 cut(s) 980
Eco24I GRGCYC 2 cut(s) 543, 552
Eco32I GATATC 1 cut(s) 914
Eco47I GGWCC 2 cut(s) 370, 584
Eco47III AGCGCT 1 cut(s) 237
Eco72I CACGTG 1 cut(s) 503
Eco88I CYCGRG 2 cut(s) 407, 884
EcoO109I RGGNCCY 1 cut(s) 370
EcoRII CCWGG 3 cut(s) 54, 323, 543
EcoRV GATATC 1 cut(s) 914
EcoT14I CCWWGG 1 cut(s) 980
EcoT22I ATGCAT 1 cut(s) 749
EcoT38I GRGCYC 2 cut(s) 543, 552
ErhI CCWWGG 1 cut(s) 980
FaeI CATG 6 cut(s) 250, 682, 723, 871, 956, 984
FaqI GGGAC 2 cut(s) 383, 424
FatI CATG 6 cut(s) 246, 678, 719, 867, 952, 980
FauI CCCGC 4 cut(s) 132, 323, 359, 855
FbaI TGATCA 1 cut(s) 949
FblI GTMKAC 2 cut(s) 60, 178
Fnu4HI GCNGC 2 cut(s) 716, 860
FokI GGATG 1 cut(s) 248
FriOI GRGCYC 2 cut(s) 543, 552
Fsp4HI GCNGC 2 cut(s) 716, 860
FspBI CTAG 2 cut(s) 42, 230
GlaI GCGC 4 cut(s) 128, 222, 237, 365
GluI GCNGC 2 cut(s) 716, 860
GsuI CTGGAG 1 cut(s) 527
HaeII RGCGCY 1 cut(s) 239
HaeIII GGCC 4 cut(s) 46, 172, 644, 898
HgaI GACGC 1 cut(s) 189
HhaI GCGC 4 cut(s) 129, 223, 238, 366
Hin1II CATG 6 cut(s) 250, 682, 723, 871, 956, 984
Hin6I GCGC 4 cut(s) 127, 221, 236, 364
HinP1I GCGC 4 cut(s) 127, 221, 236, 364
HincII GTYRAC 2 cut(s) 179, 976
HindII GTYRAC 2 cut(s) 179, 976
HinfI GANTC 7 cut(s) 10, 206, 448, 799, 821, 877, 922
HphI GGTGA 1 cut(s) 968
Hpy166II GTNNAC 3 cut(s) 61, 179, 976
Hpy188I TCNGA 6 cut(s) 9, 37, 295, 447, 826, 906
Hpy188III TCNNGA 5 cut(s) 23, 91, 107, 468, 966
Hpy8I GTNNAC 3 cut(s) 61, 179, 976
Hpy99I CGWCG 4 cut(s) 183, 312, 440, 443
HpyCH4III ACNGT 2 cut(s) 341, 628
HpyCH4IV ACGT 3 cut(s) 310, 413, 502
HpyCH4V TGCA 3 cut(s) 678, 723, 747
HpyF10VI GCNNNNNNNGC 5 cut(s) 75, 235, 547, 724, 786
HpyF3I CTNAG 3 cut(s) 8, 36, 761
HpySE526I ACGT 3 cut(s) 310, 413, 502
Hsp92II CATG 6 cut(s) 250, 682, 723, 871, 956, 984
HspAI GCGC 4 cut(s) 127, 221, 236, 364
KflI GGGWCCC 1 cut(s) 370
KpnI GGTACC 2 cut(s) 396, 500
Ksp22I TGATCA 1 cut(s) 949
Kzo9I GATC 6 cut(s) 93, 417, 442, 464, 511, 949
LmnI GCTCC 3 cut(s) 281, 546, 559
Lsp1109I GCAGC 1 cut(s) 702
MabI ACCWGGT 1 cut(s) 54
MaeI CTAG 2 cut(s) 42, 230
MaeII ACGT 3 cut(s) 310, 413, 502
MaeIII GTNAC 1 cut(s) 956
MalI GATC 6 cut(s) 95, 419, 444, 466, 513, 951
MboI GATC 6 cut(s) 93, 417, 442, 464, 511, 949
MboII GAAGA 1 cut(s) 345
MflI RGATCY 1 cut(s) 511
MhlI GDGCHC 3 cut(s) 286, 543, 552
MluCI AATT 2 cut(s) 664, 772
MlyI GAGTC 2 cut(s) 19, 886
Mph1103I ATGCAT 1 cut(s) 749
MseI TTAA 2 cut(s) 630, 690
MspA1I CMGCKG 1 cut(s) 840
Mva1269I GAATGC 2 cut(s) 749, 988
MvaI CCWGG 3 cut(s) 56, 325, 545
MvnI CGCG 3 cut(s) 127, 223, 366
MwoI GCNNNNNNNGC 5 cut(s) 75, 235, 547, 724, 786
NciI CCSGG 7 cut(s) 408, 409, 485, 516, 582, 782, 791
NcoI CCATGG 1 cut(s) 980
NdeII GATC 6 cut(s) 93, 417, 442, 464, 511, 949
NlaIII CATG 6 cut(s) 250, 682, 723, 871, 956, 984
NlaIV GGNNCC 7 cut(s) 297, 371, 372, 394, 498, 513, 542
NmuCI GTSAC 1 cut(s) 956
NsiI ATGCAT 1 cut(s) 749
NspV TTCGAA 2 cut(s) 204, 833
PcsI WCGNNNNNNNCGW 1 cut(s) 830
PctI GAATGC 2 cut(s) 749, 988
PfeI GAWTC 5 cut(s) 206, 448, 799, 821, 922
PflFI GACNNNGTC 1 cut(s) 113
PfoI TCCNGGA 1 cut(s) 514
PinAI ACCGGT 1 cut(s) 493
PkrI GCNGC 2 cut(s) 717, 861
PleI GAGTC 2 cut(s) 18, 885
PmaCI CACGTG 1 cut(s) 503
PmlI CACGTG 1 cut(s) 503
PpsI GAGTC 2 cut(s) 18, 885
Ppu21I YACGTR 1 cut(s) 503
PpuMI RGGWCCY 1 cut(s) 370
Psp5II RGGWCCY 1 cut(s) 370
Psp6I CCWGG 3 cut(s) 54, 323, 543
PspCI CACGTG 1 cut(s) 503
PspGI CCWGG 3 cut(s) 54, 323, 543
PspN4I GGNNCC 7 cut(s) 297, 371, 372, 394, 498, 513, 542
PspPI GGNCC 4 cut(s) 171, 370, 584, 643
PspPPI RGGWCCY 1 cut(s) 370
PsuI RGATCY 1 cut(s) 511
PsyI GACNNNGTC 1 cut(s) 113
RsaI GTAC 4 cut(s) 394, 426, 498, 597
RsaNI GTAC 4 cut(s) 393, 425, 497, 596
Rsr2I CGGWCCG 1 cut(s) 584
RsrII CGGWCCG 1 cut(s) 584
SalI GTCGAC 1 cut(s) 177
SaqAI TTAA 2 cut(s) 630, 690
SatI GCNGC 2 cut(s) 716, 860
Sau3AI GATC 6 cut(s) 93, 417, 442, 464, 511, 949
Sau96I GGNCC 4 cut(s) 171, 370, 584, 643
SchI GAGTC 2 cut(s) 19, 886
SduI GDGCHC 3 cut(s) 286, 543, 552
SexAI ACCWGGT 1 cut(s) 54
SfuI TTCGAA 2 cut(s) 204, 833
SinI GGWCC 2 cut(s) 370, 584
SmaI CCCGGG 1 cut(s) 409
Sse9I AATT 2 cut(s) 664, 772
SsiI CCGC 9 cut(s) 125, 279, 316, 366, 587, 840, 859, 862, 936
SspMI CTAG 2 cut(s) 42, 230
StyI CCWWGG 1 cut(s) 980
TaaI ACNGT 2 cut(s) 341, 628
TaiI ACGT 3 cut(s) 313, 416, 505
TaqII GACCGA 1 cut(s) 591
TasI AATT 2 cut(s) 664, 772
TauI GCSGC 1 cut(s) 862
TfiI GAWTC 5 cut(s) 206, 448, 799, 821, 922
Tru1I TTAA 2 cut(s) 630, 690
Tru9I TTAA 2 cut(s) 630, 690
TseFI GTSAC 1 cut(s) 956
TseI GCWGC 1 cut(s) 715
Tsp45I GTSAC 1 cut(s) 956
TspDTI ATGAA 2 cut(s) 175, 756
TspMI CCCGGG 1 cut(s) 407
Tth111I GACNNNGTC 1 cut(s) 113
VpaK11BI GGWCC 2 cut(s) 370, 584
XmaI CCCGGG 1 cut(s) 407
XmiI GTMKAC 2 cut(s) 60, 178
XspI CTAG 2 cut(s) 42, 230
Zsp2I ATGCAT 1 cut(s) 749
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.