Rroxscaffold_5G00375020

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0008685
Physical Location & Seq
Forward (+)
55910215 .. 55912869
2655 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00375020.1

Sequence Viewer

Length: 663 bp
ATGGGGGCGAAGGCGAAAAAGGCCATGAAAAAGCAGCTGAGCAAAGCTGTTTCTGCTTCTGCTTCTGCTCAAAAACCAGTTGCTGGTTCCGCTACTGCTGCTCCTGATTTCTTGCCATTAGAAGGCGGTCCTGCGCGTAAGCTCCCGGAAGAGAAGCCTAAGGAAGATGTTGCCAGGGTTGTATACATCAGTCGGATACCGCACGGCTTCTATGAAAAAGAAATGCAAGGTTTCTTTGGGCAGTTTGGTGTAATTAAGAGATTAAGAATTGTACGCAACAGAAAGACAGGAAAGTCCAAGCATTTTGGCTTCATCGAGTTTGAGGACCCTGGGGTTGCGAAAATTGTAGCTGAAACTATGGATAATTATTTGTTGTTCGAACACCTTTTGCAAACCCGTCTTATTCCTCCAGAGAAAGTTCACCCGAAGTTGTGGAAAGGTTGCAACGTTCGAGCCAAACCCTTGAACTGGGTTCAAATTGAGCGCAAGAGGCATGATAAGGAAAGAACGTCGGAAGAGCACAAAAAGCTGGTGGAGAAAATTAAGAAGAGAGATCTGAAGCGTCAAAAGAGAATTGAGGCTGCTGGTATTGAGTACGATTGCCCAGACATTGTCACTAATGATCAGCCTGCTCCAAAGAAGAAGAAGTTGCGCCTAAAGTAG
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
RRM_1

Protein Analysis

220

Amino Acids

25.14

Weight (kDa)

10.05

Isoelectric Point (pI)

38.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 61 - 128 6.3e-13 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 292
AccB7I CCANNNNNTGG 1 cut(s) 83
AccI GTMKAC 1 cut(s) 183
AccII CGCG 1 cut(s) 136
AciI CCGC 3 cut(s) 90, 126, 200
AclI AACGTT 1 cut(s) 447
AcuI CTGAAG 1 cut(s) 578
AfaI GTAC 2 cut(s) 273, 596
AfiI CCNNNNNNNGG 3 cut(s) 83, 122, 468
AgsI TTSAA 2 cut(s) 466, 476
AjnI CCWGG 2 cut(s) 173, 328
AluBI AGCT 5 cut(s) 37, 47, 142, 350, 529
AluI AGCT 5 cut(s) 37, 47, 142, 350, 529
Alw21I GWGCWC 1 cut(s) 522
AlwNI CAGNNNCTG 1 cut(s) 83
AoxI GGCC 1 cut(s) 21
ApeKI GCWGC 3 cut(s) 34, 98, 581
AspLEI GCGC 3 cut(s) 136, 486, 654
AspS9I GGNCC 2 cut(s) 128, 325
AsuC2I CCSGG 1 cut(s) 146
AsuHPI GGTGA 1 cut(s) 413
AsuII TTCGAA 1 cut(s) 378
AvaII GGWCC 2 cut(s) 128, 325
AxyI CCTNAGG 1 cut(s) 159
Bbv12I GWGCWC 1 cut(s) 522
BbvI GCAGC 3 cut(s) 46, 85, 568
BceAI ACGGC 1 cut(s) 220
BciT130I CCWGG 2 cut(s) 175, 330
BciVI GTATCC 1 cut(s) 189
BclI TGATCA 1 cut(s) 622
BcnI CCSGG 1 cut(s) 146
BfuI GTATCC 1 cut(s) 189
BglII AGATCT 1 cut(s) 553
BisI GCNGC 3 cut(s) 35, 99, 582
BlpI GCTNAGC 1 cut(s) 38
BlsI GCNGC 3 cut(s) 36, 100, 583
Bme1390I CCNGG 3 cut(s) 146, 175, 330
Bme18I GGWCC 2 cut(s) 128, 325
BmgT120I GGNCC 2 cut(s) 128, 325
BmiI GGNNCC 2 cut(s) 88, 327
BmrFI CCNGG 3 cut(s) 146, 175, 330
BmrI ACTGGG 1 cut(s) 478
BmuI ACTGGG 1 cut(s) 478
BpmI CTGGAG 1 cut(s) 393
Bpu1102I GCTNAGC 1 cut(s) 38
Bpu14I TTCGAA 1 cut(s) 378
BpuMI CCSGG 1 cut(s) 146
BsaJI CCNNGG 3 cut(s) 174, 328, 329
BsaXI ACNNNNNCTCC 2 cut(s) 85, 115
Bsc4I CCNNNNNNNGG 3 cut(s) 83, 122, 468
Bse1I ACTGG 2 cut(s) 77, 473
Bse21I CCTNAGG 1 cut(s) 159
BseBI CCWGG 2 cut(s) 175, 330
BseDI CCNNGG 3 cut(s) 174, 328, 329
BseLI CCNNNNNNNGG 3 cut(s) 83, 122, 468
BseMII CTCAG 1 cut(s) 29
BseNI ACTGG 2 cut(s) 77, 473
BseXI GCAGC 3 cut(s) 46, 85, 568
Bsh1236I CGCG 1 cut(s) 136
BshFI GGCC 1 cut(s) 23
BsiHKAI GWGCWC 1 cut(s) 522
BsiSI CCGG 1 cut(s) 146
BslI CCNNNNNNNGG 3 cut(s) 83, 122, 468
BsnI GGCC 1 cut(s) 23
Bsp119I TTCGAA 1 cut(s) 378
Bsp1286I GDGCHC 1 cut(s) 522
Bsp143I GATC 2 cut(s) 553, 622
Bsp1720I GCTNAGC 1 cut(s) 38
BspACI CCGC 3 cut(s) 90, 126, 200
BspANI GGCC 1 cut(s) 23
BspCNI CTCAG 1 cut(s) 30
BspFNI CGCG 1 cut(s) 136
BspLI GGNNCC 2 cut(s) 88, 327
BspQI GCTCTTC 1 cut(s) 510
BspT104I TTCGAA 1 cut(s) 378
BsrI ACTGG 2 cut(s) 77, 473
BssECI CCNNGG 3 cut(s) 174, 328, 329
BssMI GATC 2 cut(s) 553, 622
BssNAI GTATAC 1 cut(s) 184
Bst1107I GTATAC 1 cut(s) 184
Bst2UI CCWGG 2 cut(s) 175, 330
Bst6I CTCTTC 3 cut(s) 144, 510, 542
BstBI TTCGAA 1 cut(s) 378
BstC8I GCNNGC 1 cut(s) 630
BstDEI CTNAG 2 cut(s) 38, 159
BstFNI CGCG 1 cut(s) 136
BstHHI GCGC 3 cut(s) 136, 486, 654
BstKTI GATC 2 cut(s) 556, 625
BstMBI GATC 2 cut(s) 553, 622
BstMWI GCNNNNNNNGC 6 cut(s) 20, 53, 89, 98, 490, 526
BstNI CCWGG 2 cut(s) 175, 330
BstSCI CCNGG 3 cut(s) 144, 173, 328
BstUI CGCG 1 cut(s) 136
BstV1I GCAGC 3 cut(s) 46, 85, 568
BstX2I RGATCY 1 cut(s) 553
BstYI RGATCY 1 cut(s) 553
BstZ17I GTATAC 1 cut(s) 184
Bsu36I CCTNAGG 1 cut(s) 159
BsuI GTATCC 1 cut(s) 189
BsuRI GGCC 1 cut(s) 23
Cac8I GCNNGC 1 cut(s) 630
CaiI CAGNNNCTG 1 cut(s) 83
CfoI GCGC 3 cut(s) 136, 486, 654
Cfr13I GGNCC 2 cut(s) 128, 325
CseI GACGC 1 cut(s) 551
Csp6I GTAC 2 cut(s) 272, 595
CviAII CATG 2 cut(s) 25, 494
CviQI GTAC 2 cut(s) 272, 595
DdeI CTNAG 2 cut(s) 38, 159
DpnI GATC 2 cut(s) 555, 624
DpnII GATC 2 cut(s) 553, 622
DrdI GACNNNNNNGTC 1 cut(s) 292
DseDI GACNNNNNNGTC 1 cut(s) 292
Eam1104I CTCTTC 3 cut(s) 144, 510, 542
EarI CTCTTC 3 cut(s) 144, 510, 542
Eco47I GGWCC 2 cut(s) 128, 325
Eco57I CTGAAG 1 cut(s) 578
Eco81I CCTNAGG 1 cut(s) 159
EcoO109I RGGNCCY 1 cut(s) 325
EcoRII CCWGG 2 cut(s) 173, 328
FaeI CATG 2 cut(s) 28, 497
FaiI YATR 5 cut(s) 26, 184, 213, 359, 495
FatI CATG 2 cut(s) 24, 493
FbaI TGATCA 1 cut(s) 622
FblI GTMKAC 1 cut(s) 183
Fnu4HI GCNGC 3 cut(s) 35, 99, 582
Fsp4HI GCNGC 3 cut(s) 35, 99, 582
GlaI GCGC 3 cut(s) 135, 485, 653
GluI GCNGC 3 cut(s) 35, 99, 582
GsuI CTGGAG 1 cut(s) 393
HaeIII GGCC 1 cut(s) 23
HapII CCGG 1 cut(s) 146
HgaI GACGC 1 cut(s) 551
HhaI GCGC 3 cut(s) 136, 486, 654
Hin1II CATG 2 cut(s) 28, 497
Hin6I GCGC 3 cut(s) 134, 484, 652
HinP1I GCGC 3 cut(s) 134, 484, 652
HpaII CCGG 1 cut(s) 146
HphI GGTGA 1 cut(s) 413
Hpy166II GTNNAC 2 cut(s) 184, 421
Hpy188I TCNGA 3 cut(s) 195, 514, 558
Hpy188III TCNNGA 2 cut(s) 104, 410
Hpy8I GTNNAC 2 cut(s) 184, 421
Hpy99I CGWCG 1 cut(s) 514
HpyAV CCTTC 2 cut(s) 4, 116
HpyCH4IV ACGT 2 cut(s) 447, 509
HpyCH4V TGCA 3 cut(s) 226, 391, 444
HpyF10VI GCNNNNNNNGC 6 cut(s) 20, 53, 89, 98, 490, 526
HpyF3I CTNAG 2 cut(s) 38, 159
HpySE526I ACGT 2 cut(s) 447, 509
Hsp92II CATG 2 cut(s) 28, 497
HspAI GCGC 3 cut(s) 134, 484, 652
Ksp22I TGATCA 1 cut(s) 622
Kzo9I GATC 2 cut(s) 553, 622
LguI GCTCTTC 1 cut(s) 510
LmnI GCTCC 3 cut(s) 106, 147, 637
Lsp1109I GCAGC 3 cut(s) 46, 85, 568
MaeII ACGT 2 cut(s) 447, 509
MaeIII GTNAC 1 cut(s) 613
MalI GATC 2 cut(s) 555, 624
MboI GATC 2 cut(s) 553, 622
MboII GAAGA 6 cut(s) 161, 176, 527, 559, 652, 655
MflI RGATCY 1 cut(s) 553
MhlI GDGCHC 1 cut(s) 522
MluCI AATT 7 cut(s) 252, 267, 342, 364, 477, 540, 573
MmeI TCCRAC 2 cut(s) 173, 492
MnlI CCTC 4 cut(s) 316, 417, 483, 571
MseI TTAA 3 cut(s) 255, 263, 543
MspA1I CMGCKG 1 cut(s) 37
MspI CCGG 1 cut(s) 146
MspR9I CCNGG 3 cut(s) 146, 175, 330
MvaI CCWGG 2 cut(s) 175, 330
MvnI CGCG 1 cut(s) 136
MwoI GCNNNNNNNGC 6 cut(s) 20, 53, 89, 98, 490, 526
NciI CCSGG 1 cut(s) 146
NdeII GATC 2 cut(s) 553, 622
NlaIII CATG 2 cut(s) 28, 497
NlaIV GGNNCC 2 cut(s) 88, 327
NmuCI GTSAC 1 cut(s) 613
NspV TTCGAA 1 cut(s) 378
PasI CCCWGGG 1 cut(s) 329
PciSI GCTCTTC 1 cut(s) 510
PflFI GACNNNGTC 1 cut(s) 611
PflMI CCANNNNNTGG 1 cut(s) 83
PfoI TCCNGGA 1 cut(s) 144
PkrI GCNGC 3 cut(s) 36, 100, 583
PpuMI RGGWCCY 1 cut(s) 325
Psp1406I AACGTT 1 cut(s) 447
Psp5II RGGWCCY 1 cut(s) 325
Psp6I CCWGG 2 cut(s) 173, 328
PspGI CCWGG 2 cut(s) 173, 328
PspN4I GGNNCC 2 cut(s) 88, 327
PspPI GGNCC 2 cut(s) 128, 325
PspPPI RGGWCCY 1 cut(s) 325
PstNI CAGNNNCTG 1 cut(s) 83
PsuI RGATCY 1 cut(s) 553
PsyI GACNNNGTC 1 cut(s) 611
PvuII CAGCTG 1 cut(s) 37
RsaI GTAC 2 cut(s) 273, 596
RsaNI GTAC 2 cut(s) 272, 595
SapI GCTCTTC 1 cut(s) 510
SaqAI TTAA 3 cut(s) 255, 263, 543
SatI GCNGC 3 cut(s) 35, 99, 582
Sau3AI GATC 2 cut(s) 553, 622
Sau96I GGNCC 2 cut(s) 128, 325
ScrFI CCNGG 3 cut(s) 146, 175, 330
SduI GDGCHC 1 cut(s) 522
SfuI TTCGAA 1 cut(s) 378
SinI GGWCC 2 cut(s) 128, 325
Sse9I AATT 7 cut(s) 252, 267, 342, 364, 477, 540, 573
SsiI CCGC 3 cut(s) 90, 126, 200
StyD4I CCNGG 3 cut(s) 144, 173, 328
TaiI ACGT 2 cut(s) 450, 512
TaqI TCGA 3 cut(s) 315, 378, 451
TasI AATT 7 cut(s) 252, 267, 342, 364, 477, 540, 573
Tru1I TTAA 3 cut(s) 255, 263, 543
Tru9I TTAA 3 cut(s) 255, 263, 543
TseFI GTSAC 1 cut(s) 613
TseI GCWGC 3 cut(s) 34, 98, 581
Tsp45I GTSAC 1 cut(s) 613
TspDTI ATGAA 3 cut(s) 41, 228, 301
Tth111I GACNNNGTC 1 cut(s) 611
Van91I CCANNNNNTGG 1 cut(s) 83
VpaK11BI GGWCC 2 cut(s) 128, 325
XmiI GTMKAC 1 cut(s) 183
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.