Rorug02G0594200

helix loop helix domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0001985
Physical Location & Seq
Reverse (-)
71600091 .. 71603525
3435 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0594200.1

Sequence Viewer

Length: 921 bp
ATGGGGGTTGAGACGACGTTACCCAATCGAAAAGACAACAACAAGGTGCTTCATCCATCGCCGGAGGAGACGAATTCGATCAGCAAGTCCAGGAAGTGCCGGCGACGTCGTCGGAAGATGTCGCCGGTGCAGAAGCTGTACGAGACGTGCAAGGCTGTGTTTTCCTTGTGCGGCGCCGGGATTATTCCCTCCTCCGAAGATATCCAGAAGCTATGCTCTGTTTTGGATGCTATGAGACCTGTTGATGTTGGCCTGACTCGTGAGTTGCCATACTTTCGACTTGCAACAGCTGGGCGAACCCCGCCAATCACATATTTGCATCTGTTTGAGTGTGACAAATTTTCAATGGGGATATTCTGTTTGCCGCCGTCAGGTGTAATTCCGCTTCATAATCACCCGGGAATGACGGTTTTCAGTAAGCTTCTTTTCGGGACAATGCATATCAAGTCATATGATTGGGTGGTTGATGCCCCTGAGAAAACACCAACAATTGAGAATCAGCAACCGACAATTGAGATTCAGCAACCGACAACTGAGAATCAGAAGTCAACACCTGAGAATCCTATTCCTTCCCAAGTTGCACCTCCTGCTACCCGCTTGGCAAAAGTGAAGGTTGATGCCGACTTTACTGCTCCTTGCGACACTAAAATCCTTTATCCAGCTGATGGAGGCAACATGCATTGCTTCACTGCTGTGACAGCATGTGCGGTGCTTGATGTGCTTGGTCCCCCATATTGTGATCCCGACGGTCGCCACTGCCAATACTACCTTGATATCCCATTTTCTCAGTTCTCAGTTGATGGAGTATCGGTCCCTGAAGAGGAGAAGGAAGGTTACGCATGGCTTCAAGAGATTGAGAAACCAGACGAGCTAGCTGTAGTCGGAGACCTGTATAGAGGCCCTCAAATACAGGACAAATAA
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

306

Amino Acids

34.08

Weight (kDa)

5.85

Isoelectric Point (pI)

59.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCO_ADO PF07847 74 - 303 3.1e-74 PCO_ADO
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)
AatII GACGTC 1 cut(s) 109
AccB1I GGYRCC 1 cut(s) 173
AccB7I CCANNNNNTGG 1 cut(s) 665
AciI CCGC 6 cut(s) 171, 302, 365, 383, 595, 707
AclWI GGATC 1 cut(s) 734
AcsI RAATTY 2 cut(s) 73, 338
AcuI CTGAAG 1 cut(s) 837
AcyI GRCGYC 2 cut(s) 106, 174
AfaI GTAC 1 cut(s) 140
AfiI CCNNNNNNNGG 3 cut(s) 371, 665, 820
AgsI TTSAA 2 cut(s) 345, 848
AjiI CACGTC 1 cut(s) 147
AjnI CCWGG 1 cut(s) 89
AleI CACNNNNGTG 1 cut(s) 692
AluBI AGCT 7 cut(s) 136, 211, 290, 421, 662, 871, 875
AluI AGCT 7 cut(s) 136, 211, 290, 421, 662, 871, 875
Alw26I GTCTC 5 cut(s) 5, 62, 137, 229, 879
AlwI GGATC 1 cut(s) 734
AlwNI CAGNNNCTG 1 cut(s) 136
Ama87I CYCGRG 1 cut(s) 397
AoxI GGCC 2 cut(s) 250, 898
ApoI RAATTY 2 cut(s) 73, 338
AspLEI GCGC 1 cut(s) 176
AspS9I GGNCC 3 cut(s) 725, 811, 899
AsuC2I CCSGG 3 cut(s) 178, 398, 399
AsuHPI GGTGA 1 cut(s) 386
AsuNHI GCTAGC 1 cut(s) 871
AvaI CYCGRG 1 cut(s) 397
AvaII GGWCC 2 cut(s) 725, 811
BanI GGYRCC 1 cut(s) 173
BarI GAAGNNNNNNTAC 4 cut(s) 369, 401, 818, 850
BauI CACGAG 1 cut(s) 258
BccI CCATC 3 cut(s) 64, 659, 794
BceAI ACGGC 1 cut(s) 352
BcgI CGANNNNNNTGC 2 cut(s) 611, 645
BciT130I CCWGG 1 cut(s) 91
BcnI CCSGG 3 cut(s) 178, 398, 399
BcoDI GTCTC 5 cut(s) 5, 62, 137, 229, 879
BfaI CTAG 1 cut(s) 872
BfmI CTRYAG 1 cut(s) 876
BfoI RGCGCY 1 cut(s) 177
BisI GCNGC 2 cut(s) 172, 365
BlsI GCNGC 2 cut(s) 173, 366
Bme1390I CCNGG 4 cut(s) 91, 178, 398, 399
Bme18I GGWCC 2 cut(s) 725, 811
BmeT110I CYCGRG 1 cut(s) 397
BmgBI CACGTC 1 cut(s) 147
BmgT120I GGNCC 3 cut(s) 725, 811, 899
BmiI GGNNCC 3 cut(s) 175, 727, 813
BmrFI CCNGG 4 cut(s) 91, 178, 398, 399
BmsI GCATC 4 cut(s) 217, 328, 457, 607
BmtI GCTAGC 1 cut(s) 875
BpuMI CCSGG 3 cut(s) 178, 398, 399
BsaHI GRCGYC 2 cut(s) 106, 174
BsaI GGTCTC 2 cut(s) 229, 879
BsaJI CCNNGG 1 cut(s) 397
BsaXI ACNNNNNCTCC 2 cut(s) 795, 825
Bsc4I CCNNNNNNNGG 3 cut(s) 371, 665, 820
Bse118I RCCGGY 2 cut(s) 99, 124
Bse3DI GCAATG 1 cut(s) 679
BseBI CCWGG 1 cut(s) 91
BseDI CCNNGG 1 cut(s) 397
BseGI GGATG 2 cut(s) 52, 232
BseLI CCNNNNNNNGG 3 cut(s) 371, 665, 820
BseMI GCAATG 1 cut(s) 679
BseMII CTCAG 5 cut(s) 465, 525, 546, 800, 807
BseRI GAGGAG 3 cut(s) 80, 181, 836
BseYI CCCAGC 1 cut(s) 290
BsgI GTGCAG 1 cut(s) 149
Bsh1285I CGRYCG 1 cut(s) 751
BshFI GGCC 2 cut(s) 252, 900
BshNI GGYRCC 1 cut(s) 173
BsiEI CGRYCG 1 cut(s) 751
BsiHKCI CYCGRG 1 cut(s) 397
BsiSI CCGG 5 cut(s) 62, 100, 125, 177, 398
BslFI GGGAC 3 cut(s) 445, 711, 797
BslI CCNNNNNNNGG 3 cut(s) 371, 665, 820
BsmAI GTCTC 5 cut(s) 5, 62, 137, 229, 879
BsmBI CGTCTC 3 cut(s) 5, 62, 137
BsmFI GGGAC 3 cut(s) 445, 711, 797
BsnI GGCC 2 cut(s) 252, 900
Bso31I GGTCTC 2 cut(s) 229, 879
BsoBI CYCGRG 1 cut(s) 397
Bsp143I GATC 2 cut(s) 78, 739
BspACI CCGC 6 cut(s) 171, 302, 365, 383, 595, 707
BspANI GGCC 2 cut(s) 252, 900
BspCNI CTCAG 5 cut(s) 466, 526, 547, 799, 806
BspLI GGNNCC 3 cut(s) 175, 727, 813
BspOI GCTAGC 1 cut(s) 875
BspPI GGATC 1 cut(s) 734
BspT107I GGYRCC 1 cut(s) 173
BspTNI GGTCTC 2 cut(s) 229, 879
BsrDI GCAATG 1 cut(s) 679
BsrFI RCCGGY 2 cut(s) 99, 124
BssAI RCCGGY 2 cut(s) 99, 124
BssECI CCNNGG 1 cut(s) 397
BssMI GATC 2 cut(s) 78, 739
BssNI GRCGYC 2 cut(s) 106, 174
BssSI CACGAG 1 cut(s) 258
Bst2BI CACGAG 1 cut(s) 258
Bst2UI CCWGG 1 cut(s) 91
Bst4CI ACNGT 2 cut(s) 409, 749
Bst6I CTCTTC 1 cut(s) 813
BstACI GRCGYC 2 cut(s) 106, 174
BstAPI GCANNNNNTGC 1 cut(s) 587
BstC8I GCNNGC 2 cut(s) 101, 873
BstDEI CTNAG 5 cut(s) 474, 534, 555, 786, 793
BstF5I GGATG 2 cut(s) 52, 232
BstH2I RGCGCY 1 cut(s) 177
BstHHI GCGC 1 cut(s) 176
BstKTI GATC 2 cut(s) 81, 742
BstMAI GTCTC 5 cut(s) 5, 62, 137, 229, 879
BstMBI GATC 2 cut(s) 78, 739
BstMCI CGRYCG 1 cut(s) 751
BstMWI GCNNNNNNNGC 4 cut(s) 301, 587, 698, 718
BstNI CCWGG 1 cut(s) 91
BstNSI RCATGY 2 cut(s) 679, 705
BstSCI CCNGG 4 cut(s) 89, 176, 396, 397
BstSFI CTRYAG 1 cut(s) 876
BsuRI GGCC 2 cut(s) 252, 900
BtgZI GCGATG 1 cut(s) 42
BtrI CACGTC 1 cut(s) 147
BtsCI GGATG 2 cut(s) 52, 232
BtsI GCAGTG 2 cut(s) 687, 754
BtsIMutI CAGTG 2 cut(s) 687, 754
Cac8I GCNNGC 2 cut(s) 101, 873
CaiI CAGNNNCTG 1 cut(s) 136
CfoI GCGC 1 cut(s) 176
Cfr10I RCCGGY 2 cut(s) 99, 124
Cfr13I GGNCC 3 cut(s) 725, 811, 899
Cfr9I CCCGGG 1 cut(s) 397
Csp6I GTAC 1 cut(s) 139
CviAII CATG 3 cut(s) 676, 702, 840
CviQI GTAC 1 cut(s) 139
DdeI CTNAG 5 cut(s) 474, 534, 555, 786, 793
DinI GGCGCC 1 cut(s) 175
DpnI GATC 2 cut(s) 80, 741
DpnII GATC 2 cut(s) 78, 739
Eam1104I CTCTTC 1 cut(s) 813
EarI CTCTTC 1 cut(s) 813
Eco31I GGTCTC 2 cut(s) 229, 879
Eco32I GATATC 2 cut(s) 202, 775
Eco47I GGWCC 2 cut(s) 725, 811
Eco57I CTGAAG 1 cut(s) 837
Eco88I CYCGRG 1 cut(s) 397
EcoO109I RGGNCCY 1 cut(s) 899
EcoRI GAATTC 1 cut(s) 73
EcoRII CCWGG 1 cut(s) 89
EcoRV GATATC 2 cut(s) 202, 775
EcoT22I ATGCAT 2 cut(s) 441, 681
EgeI GGCGCC 1 cut(s) 175
EheI GGCGCC 1 cut(s) 175
Esp3I CGTCTC 3 cut(s) 5, 62, 137
FaeI CATG 3 cut(s) 679, 705, 843
FaqI GGGAC 3 cut(s) 445, 711, 797
FatI CATG 3 cut(s) 675, 701, 839
FauI CCCGC 2 cut(s) 309, 602
FauNDI CATATG 1 cut(s) 451
Fnu4HI GCNGC 2 cut(s) 172, 365
FokI GGATG 2 cut(s) 39, 239
Fsp4HI GCNGC 2 cut(s) 172, 365
FspBI CTAG 1 cut(s) 872
GlaI GCGC 1 cut(s) 175
GluI GCNGC 2 cut(s) 172, 365
GsaI CCCAGC 1 cut(s) 294
HaeII RGCGCY 1 cut(s) 177
HaeIII GGCC 2 cut(s) 252, 900
HapII CCGG 5 cut(s) 62, 100, 125, 177, 398
HhaI GCGC 1 cut(s) 176
Hin1I GRCGYC 2 cut(s) 106, 174
Hin1II CATG 3 cut(s) 679, 705, 843
Hin6I GCGC 1 cut(s) 174
HinP1I GCGC 1 cut(s) 174
HincII GTYRAC 1 cut(s) 549
HindII GTYRAC 1 cut(s) 549
HindIII AAGCTT 1 cut(s) 419
HinfI GANTC 5 cut(s) 256, 496, 517, 538, 559
HpaII CCGG 5 cut(s) 62, 100, 125, 177, 398
HphI GGTGA 1 cut(s) 386
Hpy166II GTNNAC 1 cut(s) 549
Hpy188I TCNGA 4 cut(s) 114, 196, 543, 884
Hpy188III TCNNGA 5 cut(s) 205, 260, 430, 743, 848
Hpy8I GTNNAC 1 cut(s) 549
Hpy99I CGWCG 5 cut(s) 19, 108, 111, 114, 749
HpyAV CCTTC 4 cut(s) 579, 604, 820, 824
HpyCH4III ACNGT 2 cut(s) 409, 749
HpyCH4IV ACGT 3 cut(s) 17, 106, 146
HpyCH4V TGCA 7 cut(s) 130, 150, 284, 319, 439, 581, 679
HpyF10VI GCNNNNNNNGC 4 cut(s) 301, 587, 698, 718
HpyF3I CTNAG 5 cut(s) 474, 534, 555, 786, 793
HpySE526I ACGT 3 cut(s) 17, 106, 146
Hsp92I GRCGYC 2 cut(s) 106, 174
Hsp92II CATG 3 cut(s) 679, 705, 843
HspAI GCGC 1 cut(s) 174
KasI GGCGCC 1 cut(s) 173
KroI GCCGGC 1 cut(s) 99
KroNI GCCGGC 1 cut(s) 101
Kzo9I GATC 2 cut(s) 78, 739
LmnI GCTCC 1 cut(s) 637
LweI GCATC 4 cut(s) 217, 328, 457, 607
MaeI CTAG 1 cut(s) 872
MaeII ACGT 3 cut(s) 17, 106, 146
MaeIII GTNAC 4 cut(s) 18, 332, 694, 833
MalI GATC 2 cut(s) 80, 741
MboI GATC 2 cut(s) 78, 739
MboII GAAGA 3 cut(s) 127, 209, 830
MfeI CAATTG 2 cut(s) 489, 510
MluCI AATT 5 cut(s) 73, 338, 378, 489, 510
Mly113I GGCGCC 1 cut(s) 174
MlyI GAGTC 1 cut(s) 250
MmeI TCCRAC 2 cut(s) 92, 862
MnlI CCTC 8 cut(s) 58, 199, 202, 594, 662, 814, 890, 912
Mph1103I ATGCAT 2 cut(s) 441, 681
MroNI GCCGGC 1 cut(s) 99
MslI CAYNNNNRTG 1 cut(s) 692
MspA1I CMGCKG 2 cut(s) 290, 662
MspI CCGG 5 cut(s) 62, 100, 125, 177, 398
MspR9I CCNGG 4 cut(s) 91, 178, 398, 399
MunI CAATTG 2 cut(s) 489, 510
MvaI CCWGG 1 cut(s) 91
MwoI GCNNNNNNNGC 4 cut(s) 301, 587, 698, 718
NaeI GCCGGC 1 cut(s) 101
NarI GGCGCC 1 cut(s) 174
NciI CCSGG 3 cut(s) 178, 398, 399
NdeI CATATG 1 cut(s) 451
NdeII GATC 2 cut(s) 78, 739
NgoMIV GCCGGC 1 cut(s) 99
NheI GCTAGC 1 cut(s) 871
NlaIII CATG 3 cut(s) 679, 705, 843
NlaIV GGNNCC 3 cut(s) 175, 727, 813
NmuCI GTSAC 2 cut(s) 332, 694
NsiI ATGCAT 2 cut(s) 441, 681
NspI RCATGY 2 cut(s) 679, 705
OliI CACNNNNGTG 1 cut(s) 692
PdiI GCCGGC 1 cut(s) 101
PfeI GAWTC 4 cut(s) 496, 517, 538, 559
PflFI GACNNNGTC 1 cut(s) 108
PflMI CCANNNNNTGG 1 cut(s) 665
PfoI TCCNGGA 1 cut(s) 89
PkrI GCNGC 2 cut(s) 173, 366
PleI GAGTC 1 cut(s) 250
PluTI GGCGCC 1 cut(s) 177
PpsI GAGTC 1 cut(s) 250
Psp6I CCWGG 1 cut(s) 89
PspFI CCCAGC 1 cut(s) 290
PspGI CCWGG 1 cut(s) 89
PspN4I GGNNCC 3 cut(s) 175, 727, 813
PspPI GGNCC 3 cut(s) 725, 811, 899
PstNI CAGNNNCTG 1 cut(s) 136
PsyI GACNNNGTC 1 cut(s) 108
PvuII CAGCTG 2 cut(s) 290, 662
RsaI GTAC 1 cut(s) 140
RsaNI GTAC 1 cut(s) 139
RseI CAYNNNNRTG 1 cut(s) 692
SatI GCNGC 2 cut(s) 172, 365
Sau3AI GATC 2 cut(s) 78, 739
Sau96I GGNCC 3 cut(s) 725, 811, 899
SchI GAGTC 1 cut(s) 250
ScrFI CCNGG 4 cut(s) 91, 178, 398, 399
SfaNI GCATC 4 cut(s) 217, 328, 457, 607
SfcI CTRYAG 1 cut(s) 876
SfoI GGCGCC 1 cut(s) 175
SgrAI CRCCGGYG 1 cut(s) 124
SinI GGWCC 2 cut(s) 725, 811
SmaI CCCGGG 1 cut(s) 399
SmiMI CAYNNNNRTG 1 cut(s) 692
Sse9I AATT 5 cut(s) 73, 338, 378, 489, 510
SsiI CCGC 6 cut(s) 171, 302, 365, 383, 595, 707
SspDI GGCGCC 1 cut(s) 173
SspMI CTAG 1 cut(s) 872
StyD4I CCNGG 4 cut(s) 89, 176, 396, 397
TaaI ACNGT 2 cut(s) 409, 749
TaiI ACGT 3 cut(s) 20, 109, 149
TaqI TCGA 3 cut(s) 28, 77, 277
TaqII GACCGA 1 cut(s) 799
TasI AATT 5 cut(s) 73, 338, 378, 489, 510
TauI GCSGC 2 cut(s) 174, 367
TfiI GAWTC 4 cut(s) 496, 517, 538, 559
TscAI CASTG 2 cut(s) 694, 761
TseFI GTSAC 2 cut(s) 332, 694
Tsp45I GTSAC 2 cut(s) 332, 694
TspDTI ATGAA 2 cut(s) 41, 377
TspMI CCCGGG 1 cut(s) 397
TspRI CASTG 2 cut(s) 694, 761
Tth111I GACNNNGTC 1 cut(s) 108
Van91I CCANNNNNTGG 1 cut(s) 665
VpaK11BI GGWCC 2 cut(s) 725, 811
XapI RAATTY 2 cut(s) 73, 338
XceI RCATGY 2 cut(s) 679, 705
XmaI CCCGGG 1 cut(s) 397
XspI CTAG 1 cut(s) 872
ZraI GACGTC 1 cut(s) 107
Zsp2I ATGCAT 2 cut(s) 441, 681
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.