Rorug03G0019700

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0013101
Physical Location & Seq
Reverse (-)
1568657 .. 1572555
3899 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0019700.1

Sequence Viewer

Length: 729 bp
ATGGCCACTCCACCGTCTTCTACAGCTCCGCCGTCCGCCTCCTCCCAATTCACCTACTCCAACGCCTCATCCTCCTCCTCCTCCTACTTCCCAATGCCCTTTCACCTCCAGCAACCCCAATACCCCGCGCCTTACACCGCCCCACCAGCCCCCGCCGTCGTCTACCCCGCGCCCGCTCCCGCTCCCGTCTACTCTCTCCCCCAGCAGTATCAACAGGCTCAGCAGCTATTTCAAAGGGACGCGCAGACGATCACGCCTGAAGCTCTCGAGAGTGTGAAGGCTGCCCTTGCAAATAGTGAAATTGAGCACAAAGCTGAAGCTAAGAAGAAGGCGATTCCTCGTAAAGCTGCCGGGCAGGCTTGGGAGGACCCAACCCTCGCAGAATGGCCTGAAAATGATTATCGCCTATTTTGTGGTGATCTTGGTAATGAGGTGAACGATGATGTTCTTTCAAAAGCATTTTCTCGATTTCCTTCCTTTAACATGGCCAGAGTTGTCAGAGACAAGAGGACTGGCAAAACTAAGGGATTTGGATTTGTTAGCTTTGCTAACCCTTCAGACCTGGCTGGAGCACTCAAGGAAATGAATGGCAAGTATGTGGGGAATCGGCCTATTAAACTGCGCAAAAGTAACTGGAGGGAGAGGATAGATTATGATGCATTAGAGAAACAAAAGAACTTCTCGCATAAGAAGCCGAAGCTTTCAAAGAAGAGTATATTACACAAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

242

Amino Acids

26.88

Weight (kDa)

9.6

Isoelectric Point (pI)

51.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 136 - 206 1e-18 RNA recognition motif
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: OG0013101)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G09250
fragaria_vesca FvH4_6g07630 FvH4_6g07630
malus_domestica MD04G1192700.v1.1 MD12G1204600.v1.1
prunus_persica Prupe.6G311800_v2.0.a1
pyrus_communis pycom04g17000 pycom12g19250
rosa_chinensis RchiOBHm_Chr3g0457291
rosa_laevigata RLG00000025236
rosa_multiflora Rmu_sc0005442.1_g000012
rosa_roxburghii Rroxscaffold_6G00422010
rosa_rugosa Rorug03G0019700
rosa_samantha Rh3AG079800 Rh3BG081500 Rh3CG081900 Rh3DG083500
rosa_wichuraiana Rw3G006880

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 623
AccBSI CCGCTC 2 cut(s) 176, 182
AccI GTMKAC 2 cut(s) 162, 189
AccII CGCG 3 cut(s) 128, 170, 242
AciI CCGC 8 cut(s) 29, 36, 126, 138, 153, 168, 174, 180
AcoI YGGCCR 2 cut(s) 3, 486
AcuI CTGAAG 3 cut(s) 279, 336, 540
AgsI TTSAA 3 cut(s) 233, 453, 705
AjnI CCWGG 1 cut(s) 561
AluBI AGCT 8 cut(s) 26, 226, 263, 314, 320, 347, 543, 700
AluI AGCT 8 cut(s) 26, 226, 263, 314, 320, 347, 543, 700
Alw21I GWGCWC 2 cut(s) 309, 574
Alw26I GTCTC 1 cut(s) 495
Ama87I CYCGRG 1 cut(s) 266
AoxI GGCC 4 cut(s) 3, 386, 486, 608
ApeKI GCWGC 3 cut(s) 223, 281, 347
AspLEI GCGC 4 cut(s) 130, 172, 244, 624
AspS9I GGNCC 1 cut(s) 367
AsuC2I CCSGG 1 cut(s) 352
AsuHPI GGTGA 4 cut(s) 43, 95, 428, 445
AvaI CYCGRG 1 cut(s) 266
AvaII GGWCC 1 cut(s) 367
BalI TGGCCA 2 cut(s) 5, 488
BbsI GAAGAC 1 cut(s) 9
Bbv12I GWGCWC 2 cut(s) 309, 574
BbvI GCAGC 3 cut(s) 235, 268, 334
BceAI ACGGC 2 cut(s) 16, 140
BciT130I CCWGG 1 cut(s) 563
BcnI CCSGG 1 cut(s) 352
BcoDI GTCTC 1 cut(s) 495
BfmI CTRYAG 1 cut(s) 21
BglI GCCNNNNNGGC 1 cut(s) 356
BisI GCNGC 3 cut(s) 224, 282, 348
BlpI GCTNAGC 1 cut(s) 219
BlsI GCNGC 3 cut(s) 225, 283, 349
Bme1390I CCNGG 2 cut(s) 352, 563
Bme18I GGWCC 1 cut(s) 367
BmeT110I CYCGRG 1 cut(s) 266
BmgT120I GGNCC 1 cut(s) 367
BmiI GGNNCC 1 cut(s) 369
BmrFI CCNGG 2 cut(s) 352, 563
BmsI GCATC 1 cut(s) 646
BpiI GAAGAC 1 cut(s) 9
BpmI CTGGAG 3 cut(s) 92, 588, 655
Bpu1102I GCTNAGC 1 cut(s) 219
BpuEI CTTGAG 1 cut(s) 560
BpuMI CCSGG 1 cut(s) 352
Bse1I ACTGG 2 cut(s) 517, 638
BseBI CCWGG 1 cut(s) 563
BseGI GGATG 1 cut(s) 68
BseMII CTCAG 1 cut(s) 233
BseNI ACTGG 2 cut(s) 517, 638
BseRI GAGGAG 4 cut(s) 31, 64, 67, 70
BseXI GCAGC 3 cut(s) 235, 268, 334
BseYI CCCAGC 1 cut(s) 201
Bsh1236I CGCG 3 cut(s) 128, 170, 242
BshFI GGCC 4 cut(s) 5, 388, 488, 610
BsiHKAI GWGCWC 2 cut(s) 309, 574
BsiHKCI CYCGRG 1 cut(s) 266
BsiSI CCGG 1 cut(s) 351
BslFI GGGAC 1 cut(s) 251
BsmAI GTCTC 1 cut(s) 495
BsmFI GGGAC 1 cut(s) 251
BsnI GGCC 4 cut(s) 5, 388, 488, 610
BsoBI CYCGRG 1 cut(s) 266
Bsp1286I GDGCHC 2 cut(s) 309, 574
Bsp143I GATC 2 cut(s) 249, 418
Bsp1720I GCTNAGC 1 cut(s) 219
BspACI CCGC 8 cut(s) 29, 36, 126, 138, 153, 168, 174, 180
BspANI GGCC 4 cut(s) 5, 388, 488, 610
BspCNI CTCAG 1 cut(s) 232
BspFNI CGCG 3 cut(s) 128, 170, 242
BspLI GGNNCC 1 cut(s) 369
BsrBI CCGCTC 2 cut(s) 176, 182
BsrI ACTGG 2 cut(s) 517, 638
BssMI GATC 2 cut(s) 249, 418
Bst2UI CCWGG 1 cut(s) 563
Bst4CI ACNGT 1 cut(s) 15
Bst6I CTCTTC 1 cut(s) 704
BstC8I GCNNGC 2 cut(s) 174, 357
BstDEI CTNAG 3 cut(s) 219, 321, 522
BstF5I GGATG 1 cut(s) 68
BstFNI CGCG 3 cut(s) 128, 170, 242
BstHHI GCGC 4 cut(s) 130, 172, 244, 624
BstKTI GATC 2 cut(s) 252, 421
BstMAI GTCTC 1 cut(s) 495
BstMBI GATC 2 cut(s) 249, 418
BstMWI GCNNNNNNNGC 4 cut(s) 146, 287, 356, 691
BstNI CCWGG 1 cut(s) 563
BstSCI CCNGG 2 cut(s) 350, 561
BstSFI CTRYAG 1 cut(s) 21
BstUI CGCG 3 cut(s) 128, 170, 242
BstV1I GCAGC 3 cut(s) 235, 268, 334
BstV2I GAAGAC 1 cut(s) 9
BsuRI GGCC 4 cut(s) 5, 388, 488, 610
BtsCI GGATG 1 cut(s) 68
Cac8I GCNNGC 2 cut(s) 174, 357
CfoI GCGC 4 cut(s) 130, 172, 244, 624
Cfr13I GGNCC 1 cut(s) 367
CseI GACGC 1 cut(s) 248
CviAII CATG 1 cut(s) 484
DdeI CTNAG 3 cut(s) 219, 321, 522
DpnI GATC 2 cut(s) 251, 420
DpnII GATC 2 cut(s) 249, 418
EaeI YGGCCR 2 cut(s) 3, 486
Eam1104I CTCTTC 1 cut(s) 704
EarI CTCTTC 1 cut(s) 704
EciI GGCGGA 2 cut(s) 18, 25
Eco47I GGWCC 1 cut(s) 367
Eco57I CTGAAG 3 cut(s) 279, 336, 540
Eco88I CYCGRG 1 cut(s) 266
EcoO109I RGGNCCY 1 cut(s) 367
EcoRII CCWGG 1 cut(s) 561
EcoT22I ATGCAT 1 cut(s) 661
FaeI CATG 1 cut(s) 487
FaiI YATR 5 cut(s) 485, 597, 654, 687, 716
FaqI GGGAC 1 cut(s) 251
FatI CATG 1 cut(s) 483
FauI CCCGC 5 cut(s) 133, 160, 175, 181, 187
FblI GTMKAC 2 cut(s) 162, 189
Fnu4HI GCNGC 3 cut(s) 224, 282, 348
FokI GGATG 1 cut(s) 55
Fsp4HI GCNGC 3 cut(s) 224, 282, 348
FspI TGCGCA 1 cut(s) 623
GlaI GCGC 4 cut(s) 129, 171, 243, 623
GluI GCNGC 3 cut(s) 224, 282, 348
GsaI CCCAGC 1 cut(s) 205
GsuI CTGGAG 3 cut(s) 92, 588, 655
HaeIII GGCC 4 cut(s) 5, 388, 488, 610
HapII CCGG 1 cut(s) 351
HgaI GACGC 1 cut(s) 248
HhaI GCGC 4 cut(s) 130, 172, 244, 624
Hin1II CATG 1 cut(s) 487
Hin6I GCGC 4 cut(s) 128, 170, 242, 622
HinP1I GCGC 4 cut(s) 128, 170, 242, 622
HindIII AAGCTT 1 cut(s) 698
HinfI GANTC 2 cut(s) 334, 604
HpaII CCGG 1 cut(s) 351
HphI GGTGA 4 cut(s) 43, 95, 428, 445
Hpy166II GTNNAC 3 cut(s) 163, 190, 436
Hpy188I TCNGA 2 cut(s) 500, 559
Hpy188III TCNNGA 3 cut(s) 266, 268, 465
Hpy8I GTNNAC 3 cut(s) 163, 190, 436
Hpy99I CGWCG 1 cut(s) 161
HpyAV CCTTC 4 cut(s) 271, 322, 483, 564
HpyCH4III ACNGT 1 cut(s) 15
HpyCH4V TGCA 2 cut(s) 290, 659
HpyF10VI GCNNNNNNNGC 4 cut(s) 146, 287, 356, 691
HpyF3I CTNAG 3 cut(s) 219, 321, 522
Hsp92II CATG 1 cut(s) 487
HspAI GCGC 4 cut(s) 128, 170, 242, 622
Kzo9I GATC 2 cut(s) 249, 418
LmnI GCTCC 4 cut(s) 31, 181, 187, 569
Lsp1109I GCAGC 3 cut(s) 235, 268, 334
LweI GCATC 1 cut(s) 646
MaeIII GTNAC 1 cut(s) 629
MalI GATC 2 cut(s) 251, 420
MbiI CCGCTC 2 cut(s) 176, 182
MboI GATC 2 cut(s) 249, 418
MboII GAAGA 3 cut(s) 9, 337, 721
MhlI GDGCHC 2 cut(s) 309, 574
MlsI TGGCCA 2 cut(s) 5, 488
MluCI AATT 2 cut(s) 47, 300
MluNI TGGCCA 2 cut(s) 5, 488
MmeI TCCRAC 1 cut(s) 84
Mox20I TGGCCA 2 cut(s) 5, 488
Mph1103I ATGCAT 1 cut(s) 661
MscI TGGCCA 2 cut(s) 5, 488
MseI TTAA 2 cut(s) 480, 615
Msp20I TGGCCA 2 cut(s) 5, 488
MspI CCGG 1 cut(s) 351
MspR9I CCNGG 2 cut(s) 352, 563
MvaI CCWGG 1 cut(s) 563
MvnI CGCG 3 cut(s) 128, 170, 242
MwoI GCNNNNNNNGC 4 cut(s) 146, 287, 356, 691
NciI CCSGG 1 cut(s) 352
NdeII GATC 2 cut(s) 249, 418
NlaIII CATG 1 cut(s) 487
NlaIV GGNNCC 1 cut(s) 369
NsbI TGCGCA 1 cut(s) 623
NsiI ATGCAT 1 cut(s) 661
PaeR7I CTCGAG 1 cut(s) 266
PfeI GAWTC 2 cut(s) 334, 604
PkrI GCNGC 3 cut(s) 225, 283, 349
PpuMI RGGWCCY 1 cut(s) 367
Psp5II RGGWCCY 1 cut(s) 367
Psp6I CCWGG 1 cut(s) 561
PspFI CCCAGC 1 cut(s) 201
PspGI CCWGG 1 cut(s) 561
PspN4I GGNNCC 1 cut(s) 369
PspPI GGNCC 1 cut(s) 367
PspPPI RGGWCCY 1 cut(s) 367
SaqAI TTAA 2 cut(s) 480, 615
SatI GCNGC 3 cut(s) 224, 282, 348
Sau3AI GATC 2 cut(s) 249, 418
Sau96I GGNCC 1 cut(s) 367
ScrFI CCNGG 2 cut(s) 352, 563
SduI GDGCHC 2 cut(s) 309, 574
SfaNI GCATC 1 cut(s) 646
SfcI CTRYAG 1 cut(s) 21
Sfr274I CTCGAG 1 cut(s) 266
SinI GGWCC 1 cut(s) 367
SlaI CTCGAG 1 cut(s) 266
SmlI CTYRAG 2 cut(s) 266, 575
SmoI CTYRAG 2 cut(s) 266, 575
Sse9I AATT 2 cut(s) 47, 300
SsiI CCGC 8 cut(s) 29, 36, 126, 138, 153, 168, 174, 180
StyD4I CCNGG 2 cut(s) 350, 561
TaaI ACNGT 1 cut(s) 15
TaqI TCGA 2 cut(s) 267, 466
TasI AATT 2 cut(s) 47, 300
TfiI GAWTC 2 cut(s) 334, 604
Tru1I TTAA 2 cut(s) 480, 615
Tru9I TTAA 2 cut(s) 480, 615
TseI GCWGC 3 cut(s) 223, 281, 347
TspDTI ATGAA 1 cut(s) 599
VpaK11BI GGWCC 1 cut(s) 367
XhoI CTCGAG 1 cut(s) 266
XmiI GTMKAC 2 cut(s) 162, 189
Zsp2I ATGCAT 1 cut(s) 661
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.