Rorug01G0339300

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0006418
Physical Location & Seq
Forward (+)
45700862 .. 45701790
929 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0339300.1

Sequence Viewer

Length: 705 bp
ATGTTGGCCGGAGACATGGAGAGGTTGTACCTATCTGACGGCGAATCTTACGAAGGAGTCGAAGACGATGAAGATGGCATGGAGTCTGACACTGAATCTTTCGACGAAGTCGAAGACAGTCATGGAGGCGCGCGTGCACGCAGTAGTATGGAGGCTACCATTCAGAAAATTAAAAACGACAAAGAACAAGCCTATGCTCTTAAGGAGAGTCTTGATTCTGATGAGGCCATTATTGGAAGGCTCAACAAAGAGGCTCGGTTTGCAGAGCGCTTTCCATGCATCATTGTGTTTATCAATCAAGTACATGGACAGCCTGCTAACACTACGGGGCTTTTCTTGATGGAGATGAAGATGAAGTTTCCGAACATGCCGATGCTGGCTCTTGTTAATTCTAGTCCAGAAGGAGTGAAGATGTTACCTTCACTCGAGGGACATGTCAAGTGGTTAGGAATCAGAAGGGACGATTTTGCCAAATATAAAATACCTACCAATGTCGACACGCCACTGACTGAAGTTGACATCAAGTTGGCGAGACATCTCTTGCAGGAAGAACGTGTCCAAAAGAATCCGGTATTGCGTGATGAGCTGAATCACATGGTAGCCACGGAGAGTATGGTAGAATCTGATGCTGTGCTAGCTTTGGGGGCACCCTTCTTGTATCAGGTTTATTTACCACTCAAACTTCAGTATATGGATTGGCAATGA
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

234

Amino Acids

26.56

Weight (kDa)

4.69

Isoelectric Point (pI)

42.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 145 - 228 1.9e-12 Topoisomerase 6 subunit A/Spo11, Toprim domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 646
AccI GTMKAC 1 cut(s) 495
AccII CGCG 2 cut(s) 131, 133
AcoI YGGCCR 1 cut(s) 6
AcuI CTGAAG 2 cut(s) 531, 668
AfaI GTAC 2 cut(s) 29, 303
AfeI AGCGCT 1 cut(s) 269
AflII CTTAAG 1 cut(s) 200
AflIII ACRYGT 2 cut(s) 433, 553
AluBI AGCT 2 cut(s) 586, 638
AluI AGCT 2 cut(s) 586, 638
Alw21I GWGCWC 1 cut(s) 139
Alw26I GTCTC 2 cut(s) 6, 526
Alw44I GTGCAC 1 cut(s) 135
Ama87I CYCGRG 1 cut(s) 425
Aor51HI AGCGCT 1 cut(s) 269
AoxI GGCC 2 cut(s) 6, 225
ApaLI GTGCAC 1 cut(s) 135
AspLEI GCGC 3 cut(s) 131, 133, 270
AsuNHI GCTAGC 1 cut(s) 634
AvaI CYCGRG 1 cut(s) 425
BaeGI GKGCMC 2 cut(s) 139, 649
BanI GGYRCC 1 cut(s) 646
BbsI GAAGAC 2 cut(s) 69, 120
Bbv12I GWGCWC 1 cut(s) 139
BccI CCATC 2 cut(s) 68, 334
BceAI ACGGC 1 cut(s) 55
BcoDI GTCTC 2 cut(s) 6, 526
BfaI CTAG 2 cut(s) 393, 635
BfoI RGCGCY 1 cut(s) 271
BfrI CTTAAG 1 cut(s) 200
BmeT110I CYCGRG 1 cut(s) 425
BmiI GGNNCC 1 cut(s) 648
BmsI GCATC 3 cut(s) 288, 363, 616
BmtI GCTAGC 1 cut(s) 638
BpiI GAAGAC 2 cut(s) 69, 120
BsaJI CCNNGG 1 cut(s) 603
BsaWI WCCGGW 1 cut(s) 568
BsaXI ACNNNNNCTCC 2 cut(s) 11, 41
BseDI CCNNGG 1 cut(s) 603
BsePI GCGCGC 1 cut(s) 129
BseSI GKGCMC 2 cut(s) 139, 649
Bsh1236I CGCG 2 cut(s) 131, 133
BshFI GGCC 2 cut(s) 8, 227
BshNI GGYRCC 1 cut(s) 646
BsiHKAI GWGCWC 1 cut(s) 139
BsiHKCI CYCGRG 1 cut(s) 425
BsiSI CCGG 2 cut(s) 9, 569
BslFI GGGAC 2 cut(s) 444, 473
BsmAI GTCTC 2 cut(s) 6, 526
BsmFI GGGAC 2 cut(s) 444, 473
BsnI GGCC 2 cut(s) 8, 227
BsoBI CYCGRG 1 cut(s) 425
Bsp1286I GDGCHC 2 cut(s) 139, 649
BspANI GGCC 2 cut(s) 8, 227
BspFNI CGCG 2 cut(s) 131, 133
BspLI GGNNCC 1 cut(s) 648
BspOI GCTAGC 1 cut(s) 638
BspT107I GGYRCC 1 cut(s) 646
BspTI CTTAAG 1 cut(s) 200
BssECI CCNNGG 1 cut(s) 603
BssHII GCGCGC 1 cut(s) 129
Bst4CI ACNGT 1 cut(s) 119
BstAFI CTTAAG 1 cut(s) 200
BstC8I GCNNGC 6 cut(s) 131, 135, 139, 315, 378, 636
BstDSI CCRYGG 1 cut(s) 603
BstFNI CGCG 2 cut(s) 131, 133
BstH2I RGCGCY 1 cut(s) 271
BstHHI GCGC 3 cut(s) 131, 133, 270
BstMAI GTCTC 2 cut(s) 6, 526
BstMWI GCNNNNNNNGC 5 cut(s) 260, 276, 583, 635, 644
BstNSI RCATGY 2 cut(s) 370, 437
BstSLI GKGCMC 2 cut(s) 139, 649
BstUI CGCG 2 cut(s) 131, 133
BstV2I GAAGAC 2 cut(s) 69, 120
BsuRI GGCC 2 cut(s) 8, 227
BtgI CCRYGG 1 cut(s) 603
BtsIMutI CAGTG 2 cut(s) 90, 503
Cac8I GCNNGC 6 cut(s) 131, 135, 139, 315, 378, 636
CfoI GCGC 3 cut(s) 131, 133, 270
Csp6I GTAC 2 cut(s) 28, 302
CviAII CATG 8 cut(s) 16, 79, 122, 276, 305, 367, 434, 595
CviQI GTAC 2 cut(s) 28, 302
EaeI YGGCCR 1 cut(s) 6
Eco47III AGCGCT 1 cut(s) 269
Eco57I CTGAAG 2 cut(s) 531, 668
Eco88I CYCGRG 1 cut(s) 425
EcoT22I ATGCAT 1 cut(s) 281
FaeI CATG 8 cut(s) 19, 82, 125, 279, 308, 370, 437, 598
FaqI GGGAC 2 cut(s) 444, 473
FatI CATG 8 cut(s) 15, 78, 121, 275, 304, 366, 433, 594
FblI GTMKAC 1 cut(s) 495
FspBI CTAG 2 cut(s) 393, 635
GlaI GCGC 3 cut(s) 130, 132, 269
HaeII RGCGCY 1 cut(s) 271
HaeIII GGCC 2 cut(s) 8, 227
HapII CCGG 2 cut(s) 9, 569
HhaI GCGC 3 cut(s) 131, 133, 270
Hin1II CATG 8 cut(s) 19, 82, 125, 279, 308, 370, 437, 598
Hin6I GCGC 3 cut(s) 129, 131, 268
HinP1I GCGC 3 cut(s) 129, 131, 268
HincII GTYRAC 2 cut(s) 496, 517
HindII GTYRAC 2 cut(s) 496, 517
HpaII CCGG 2 cut(s) 9, 569
Hpy166II GTNNAC 3 cut(s) 137, 496, 517
Hpy188I TCNGA 7 cut(s) 37, 88, 165, 220, 363, 455, 625
Hpy188III TCNNGA 3 cut(s) 212, 337, 398
Hpy8I GTNNAC 3 cut(s) 137, 496, 517
Hpy99I CGWCG 1 cut(s) 107
HpyAV CCTTC 6 cut(s) 47, 231, 395, 429, 450, 661
HpyCH4III ACNGT 1 cut(s) 119
HpyCH4IV ACGT 1 cut(s) 553
HpyCH4V TGCA 4 cut(s) 137, 263, 279, 544
HpyF10VI GCNNNNNNNGC 5 cut(s) 260, 276, 583, 635, 644
HpySE526I ACGT 1 cut(s) 553
Hsp92II CATG 8 cut(s) 19, 82, 125, 279, 308, 370, 437, 598
HspAI GCGC 3 cut(s) 129, 131, 268
LpnPI CCDG 7 cut(s) 22, 327, 362, 411, 530, 582, 647
LweI GCATC 3 cut(s) 288, 363, 616
MaeI CTAG 2 cut(s) 393, 635
MaeII ACGT 1 cut(s) 553
MaeIII GTNAC 1 cut(s) 414
MboII GAAGA 6 cut(s) 74, 83, 125, 361, 421, 560
MhlI GDGCHC 2 cut(s) 139, 649
MluCI AATT 2 cut(s) 168, 388
MlyI GAGTC 3 cut(s) 66, 92, 217
MnlI CCTC 6 cut(s) 15, 119, 145, 217, 244, 421
Mph1103I ATGCAT 1 cut(s) 281
MseI TTAA 3 cut(s) 171, 201, 387
MslI CAYNNNNRTG 2 cut(s) 284, 371
MspCI CTTAAG 1 cut(s) 200
MspI CCGG 2 cut(s) 9, 569
MvnI CGCG 2 cut(s) 131, 133
MwoI GCNNNNNNNGC 5 cut(s) 260, 276, 583, 635, 644
NheI GCTAGC 1 cut(s) 634
NlaIII CATG 8 cut(s) 19, 82, 125, 279, 308, 370, 437, 598
NlaIV GGNNCC 1 cut(s) 648
NsiI ATGCAT 1 cut(s) 281
NspI RCATGY 2 cut(s) 370, 437
PaeR7I CTCGAG 1 cut(s) 425
PauI GCGCGC 1 cut(s) 129
PciI ACATGT 1 cut(s) 433
PcsI WCGNNNNNNNCGW 2 cut(s) 57, 108
PfeI GAWTC 7 cut(s) 44, 95, 215, 450, 565, 589, 620
PflFI GACNNNGTC 1 cut(s) 107
PleI GAGTC 3 cut(s) 65, 91, 216
PpsI GAGTC 3 cut(s) 65, 91, 216
PscI ACATGT 1 cut(s) 433
PspN4I GGNNCC 1 cut(s) 648
PspXI VCTCGAGB 1 cut(s) 425
PsyI GACNNNGTC 1 cut(s) 107
PteI GCGCGC 1 cut(s) 129
RsaI GTAC 2 cut(s) 29, 303
RsaNI GTAC 2 cut(s) 28, 302
RseI CAYNNNNRTG 2 cut(s) 284, 371
SalI GTCGAC 1 cut(s) 494
SaqAI TTAA 3 cut(s) 171, 201, 387
SchI GAGTC 3 cut(s) 66, 92, 217
SduI GDGCHC 2 cut(s) 139, 649
SetI ASST 8 cut(s) 26, 33, 421, 487, 556, 588, 640, 666
SfaNI GCATC 3 cut(s) 288, 363, 616
Sfr274I CTCGAG 1 cut(s) 425
SlaI CTCGAG 1 cut(s) 425
SmiMI CAYNNNNRTG 2 cut(s) 284, 371
SmlI CTYRAG 2 cut(s) 200, 425
SmoI CTYRAG 2 cut(s) 200, 425
Sse9I AATT 2 cut(s) 168, 388
SspMI CTAG 2 cut(s) 393, 635
TaaI ACNGT 1 cut(s) 119
TaiI ACGT 1 cut(s) 556
TaqI TCGA 5 cut(s) 60, 102, 111, 426, 495
TasI AATT 2 cut(s) 168, 388
TatI WGTACW 1 cut(s) 301
TfiI GAWTC 7 cut(s) 44, 95, 215, 450, 565, 589, 620
Tru1I TTAA 3 cut(s) 171, 201, 387
Tru9I TTAA 3 cut(s) 171, 201, 387
TscAI CASTG 2 cut(s) 97, 510
TspDTI ATGAA 3 cut(s) 84, 362, 368
TspGWI ACGGA 1 cut(s) 620
TspRI CASTG 2 cut(s) 97, 510
Tth111I GACNNNGTC 1 cut(s) 107
Vha464I CTTAAG 1 cut(s) 200
VneI GTGCAC 1 cut(s) 135
XceI RCATGY 2 cut(s) 370, 437
XcmI CCANNNNNNNNNTGG 1 cut(s) 610
XhoI CTCGAG 1 cut(s) 425
XmiI GTMKAC 1 cut(s) 495
XspI CTAG 2 cut(s) 393, 635
Zsp2I ATGCAT 1 cut(s) 281
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.