Rw6G043040

PHAX RNA-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0008081
Physical Location & Seq
Forward (+)
66451950 .. 66454140
2191 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G043040.1

Sequence Viewer

Length: 792 bp
ATGGAAGGAGAAGATAGCGTATTAGATTCAATATATGATGATAACTTTGAGGATGGTGAGGATGTCGAAATGCTCGATGTCGAAGAAGGGGAGCTTGTGGAGCATGAATCACAGAATGGCTCGGTACAGGGGAGTGGGGGGAATGACAGTGGAGCAAACCAAGAGCATCAGAGTAAGGGTAGCAAGAATAAGAGGAAGAAGAGGAGAAATAAGAGAAAGAACAGCAGCGGCGGCCCATGGACTAATGTATTTGACATAGACAGGTTTGTTTCGGAGACATGTAGAAATTTGAGAGAGAAAAAATCGTATATGGTATACACTGCTGTTGGTTGTCTTGGTGTTGCTGCATTGTGTGATCTCATCAAAGAGGTGAATGCAATCCAGGCATGTGGAGGTCAGATGACTGCTAATGGCAGACGTTTGCGGACGGGTGGTGGTCTGCTGTGGAATATCATCAAAGCACGAGAGCCAAAGGCCTATAAAGAGATCATGAAGAAAGCCAAGGAATTTGAGAAGCAATTCAAGCAACCATATAATAGACAACCACCAACAAACCAAAGTAAAGTAGAACCATCCCAAGTATTTGCTACTTCATCAGAGGATGCGACTCCAGCCAAAATTTCAAATGATTTGCAGCATGTATCTGAAATGACTGAAATGCCTGAAGTTCAGACTCAAGACAATCAGTCAAATCCCCGAAGTAAACACGTTTCTGTTCATGATAGGCTAAGGGTACCTGTTTCATATGATGATGACCTGCTTACAGGGGAACCCAAAGATGATGCAATTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 map03013
Pfam Domains
Protein Families
RNA_GG_bind

Protein Analysis

263

Amino Acids

29.41

Weight (kDa)

5.43

Isoelectric Point (pI)

58.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHAX_RNA-bd PF10258 89 - 169 2.3e-24 Phosphorylated adapter RNA export protein, RNA-binding 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)
Acc36I ACCTGC 1 cut(s) 765
Acc65I GGTACC 1 cut(s) 733
AccB1I GGYRCC 1 cut(s) 733
AccI GTMKAC 1 cut(s) 315
AciI CCGC 3 cut(s) 228, 231, 424
AcsI RAATTY 3 cut(s) 286, 506, 618
AcuI CTGAAG 1 cut(s) 684
AfaI GTAC 2 cut(s) 126, 735
AflIII ACRYGT 2 cut(s) 278, 706
AgsI TTSAA 3 cut(s) 30, 523, 624
AhdI GACNNNNNGTC 1 cut(s) 685
AjnI CCWGG 1 cut(s) 381
AluBI AGCT 1 cut(s) 94
AluI AGCT 1 cut(s) 94
Alw26I GTCTC 1 cut(s) 269
AoxI GGCC 2 cut(s) 232, 474
ApeKI GCWGC 3 cut(s) 225, 344, 634
ApoI RAATTY 3 cut(s) 286, 506, 618
Asp700I GAANNNNTTC 1 cut(s) 518
Asp718I GGTACC 1 cut(s) 733
AspS9I GGNCC 1 cut(s) 233
AsuHPI GGTGA 2 cut(s) 68, 382
BanI GGYRCC 1 cut(s) 733
BauI CACGAG 1 cut(s) 462
BbvI GCAGC 3 cut(s) 237, 331, 646
BccI CCATC 2 cut(s) 47, 580
BciT130I CCWGG 1 cut(s) 383
BcoDI GTCTC 1 cut(s) 269
BfuAI ACCTGC 1 cut(s) 765
BisI GCNGC 5 cut(s) 226, 229, 232, 345, 635
BlsI GCNGC 5 cut(s) 227, 230, 233, 346, 636
Bme1390I CCNGG 1 cut(s) 383
BmeRI GACNNNNNGTC 1 cut(s) 685
BmgT120I GGNCC 1 cut(s) 233
BmiI GGNNCC 2 cut(s) 735, 771
BmrFI CCNGG 1 cut(s) 383
BmsI GCATC 3 cut(s) 175, 592, 772
BpmI CTGGAG 1 cut(s) 594
Bpu10I CCTNAGC 1 cut(s) 728
BpuEI CTTGAG 1 cut(s) 660
BsaJI CCNNGG 2 cut(s) 236, 501
BseBI CCWGG 1 cut(s) 383
BseDI CCNNGG 2 cut(s) 236, 501
BseGI GGATG 4 cut(s) 58, 67, 572, 607
BseRI GAGGAG 1 cut(s) 217
BseXI GCAGC 3 cut(s) 237, 331, 646
BshFI GGCC 2 cut(s) 234, 476
BshNI GGYRCC 1 cut(s) 733
BsmAI GTCTC 1 cut(s) 269
BsmI GAATGC 1 cut(s) 379
BsnI GGCC 2 cut(s) 234, 476
Bsp143I GATC 2 cut(s) 355, 486
Bsp19I CCATGG 1 cut(s) 236
BspACI CCGC 3 cut(s) 228, 231, 424
BspANI GGCC 2 cut(s) 234, 476
BspHI TCATGA 2 cut(s) 489, 718
BspLI GGNNCC 2 cut(s) 735, 771
BspMI ACCTGC 1 cut(s) 765
BspT107I GGYRCC 1 cut(s) 733
BssECI CCNNGG 2 cut(s) 236, 501
BssMI GATC 2 cut(s) 355, 486
BssNAI GTATAC 1 cut(s) 316
BssSI CACGAG 1 cut(s) 462
BssT1I CCWWGG 2 cut(s) 236, 501
Bst1107I GTATAC 1 cut(s) 316
Bst2BI CACGAG 1 cut(s) 462
Bst2UI CCWGG 1 cut(s) 383
Bst4CI ACNGT 1 cut(s) 149
Bst6I CTCTTC 1 cut(s) 194
BstDEI CTNAG 1 cut(s) 728
BstDSI CCRYGG 1 cut(s) 236
BstF5I GGATG 4 cut(s) 58, 67, 572, 607
BstKTI GATC 2 cut(s) 358, 489
BstMAI GTCTC 1 cut(s) 269
BstMBI GATC 2 cut(s) 355, 486
BstMWI GCNNNNNNNGC 5 cut(s) 100, 231, 383, 523, 611
BstNI CCWGG 1 cut(s) 383
BstNSI RCATGY 3 cut(s) 282, 390, 641
BstSCI CCNGG 1 cut(s) 381
BstV1I GCAGC 3 cut(s) 237, 331, 646
BstXI CCANNNNNNTGG 1 cut(s) 389
BstZ17I GTATAC 1 cut(s) 316
BsuRI GGCC 2 cut(s) 234, 476
BtgI CCRYGG 1 cut(s) 236
BtsCI GGATG 4 cut(s) 58, 67, 572, 607
BtsI GCAGTG 1 cut(s) 318
BtsIMutI CAGTG 2 cut(s) 154, 318
BveI ACCTGC 1 cut(s) 765
CciI TCATGA 2 cut(s) 489, 718
Cfr13I GGNCC 1 cut(s) 233
Csp6I GTAC 2 cut(s) 125, 734
CviAII CATG 7 cut(s) 104, 237, 279, 387, 490, 638, 719
CviJI RGCY 8 cut(s) 94, 120, 234, 469, 476, 500, 614, 727
CviKI_1 RGCY 8 cut(s) 94, 120, 234, 469, 476, 500, 614, 727
CviQI GTAC 2 cut(s) 125, 734
DdeI CTNAG 1 cut(s) 728
DpnI GATC 2 cut(s) 357, 488
DpnII GATC 2 cut(s) 355, 486
DriI GACNNNNNGTC 1 cut(s) 685
Eam1104I CTCTTC 1 cut(s) 194
Eam1105I GACNNNNNGTC 1 cut(s) 685
EarI CTCTTC 1 cut(s) 194
Eco130I CCWWGG 2 cut(s) 236, 501
Eco147I AGGCCT 1 cut(s) 476
Eco57I CTGAAG 1 cut(s) 684
EcoRII CCWGG 1 cut(s) 381
EcoT14I CCWWGG 2 cut(s) 236, 501
ErhI CCWWGG 2 cut(s) 236, 501
FaeI CATG 7 cut(s) 107, 240, 282, 390, 493, 641, 722
FalI AAGNNNNNCTT 2 cut(s) 78, 110
FatI CATG 7 cut(s) 103, 236, 278, 386, 489, 637, 718
FauNDI CATATG 1 cut(s) 745
FblI GTMKAC 1 cut(s) 315
Fnu4HI GCNGC 5 cut(s) 226, 229, 232, 345, 635
FokI GGATG 4 cut(s) 65, 74, 559, 614
Fsp4HI GCNGC 5 cut(s) 226, 229, 232, 345, 635
GluI GCNGC 5 cut(s) 226, 229, 232, 345, 635
GsuI CTGGAG 1 cut(s) 594
HaeIII GGCC 2 cut(s) 234, 476
Hin1II CATG 7 cut(s) 107, 240, 282, 390, 493, 641, 722
HinfI GANTC 4 cut(s) 26, 107, 607, 673
HphI GGTGA 2 cut(s) 68, 382
Hpy166II GTNNAC 2 cut(s) 316, 704
Hpy188I TCNGA 6 cut(s) 171, 274, 399, 598, 646, 672
Hpy188III TCNNGA 3 cut(s) 490, 677, 719
Hpy8I GTNNAC 2 cut(s) 316, 704
HpyAV CCTTC 1 cut(s) 80
HpyCH4III ACNGT 1 cut(s) 149
HpyCH4IV ACGT 2 cut(s) 418, 708
HpyCH4V TGCA 4 cut(s) 347, 377, 634, 785
HpyF10VI GCNNNNNNNGC 5 cut(s) 100, 231, 383, 523, 611
HpyF3I CTNAG 1 cut(s) 728
HpySE526I ACGT 2 cut(s) 418, 708
Hsp92II CATG 7 cut(s) 107, 240, 282, 390, 493, 641, 722
KpnI GGTACC 1 cut(s) 737
Kzo9I GATC 2 cut(s) 355, 486
LmnI GCTCC 3 cut(s) 91, 100, 152
LpnPI CCDG 9 cut(s) 113, 247, 368, 395, 624, 675, 750, 750, 770
Lsp1109I GCAGC 3 cut(s) 237, 331, 646
LweI GCATC 3 cut(s) 175, 592, 772
MaeII ACGT 2 cut(s) 418, 708
MalI GATC 2 cut(s) 357, 488
MboI GATC 2 cut(s) 355, 486
MboII GAAGA 5 cut(s) 23, 95, 208, 211, 505
MluCI AATT 5 cut(s) 286, 506, 518, 618, 786
MlyI GAGTC 2 cut(s) 601, 667
MnlI CCTC 7 cut(s) 43, 52, 186, 195, 361, 386, 592
MroXI GAANNNNTTC 1 cut(s) 518
MspA1I CMGCKG 1 cut(s) 228
MspR9I CCNGG 1 cut(s) 383
Mva1269I GAATGC 1 cut(s) 379
MvaI CCWGG 1 cut(s) 383
MwoI GCNNNNNNNGC 5 cut(s) 100, 231, 383, 523, 611
NcoI CCATGG 1 cut(s) 236
NdeI CATATG 1 cut(s) 745
NdeII GATC 2 cut(s) 355, 486
NlaIII CATG 7 cut(s) 107, 240, 282, 390, 493, 641, 722
NlaIV GGNNCC 2 cut(s) 735, 771
NspI RCATGY 3 cut(s) 282, 390, 641
PagI TCATGA 2 cut(s) 489, 718
PceI AGGCCT 1 cut(s) 476
PciI ACATGT 1 cut(s) 278
PcsI WCGNNNNNNNCGW 1 cut(s) 72
PctI GAATGC 1 cut(s) 379
PdmI GAANNNNTTC 1 cut(s) 518
PfeI GAWTC 2 cut(s) 26, 107
PkrI GCNGC 5 cut(s) 227, 230, 233, 346, 636
PleI GAGTC 2 cut(s) 601, 667
PpsI GAGTC 2 cut(s) 601, 667
PscI ACATGT 1 cut(s) 278
Psp6I CCWGG 1 cut(s) 381
PspGI CCWGG 1 cut(s) 381
PspN4I GGNNCC 2 cut(s) 735, 771
PspPI GGNCC 1 cut(s) 233
RsaI GTAC 2 cut(s) 126, 735
RsaNI GTAC 2 cut(s) 125, 734
SatI GCNGC 5 cut(s) 226, 229, 232, 345, 635
Sau3AI GATC 2 cut(s) 355, 486
Sau96I GGNCC 1 cut(s) 233
SchI GAGTC 2 cut(s) 601, 667
ScrFI CCNGG 1 cut(s) 383
SetI ASST 8 cut(s) 96, 266, 372, 397, 421, 711, 739, 759
SfaNI GCATC 3 cut(s) 175, 592, 772
SmlI CTYRAG 1 cut(s) 675
SmoI CTYRAG 1 cut(s) 675
Sse9I AATT 5 cut(s) 286, 506, 518, 618, 786
SseBI AGGCCT 1 cut(s) 476
SsiI CCGC 3 cut(s) 228, 231, 424
StuI AGGCCT 1 cut(s) 476
StyD4I CCNGG 1 cut(s) 381
StyI CCWWGG 2 cut(s) 236, 501
TaaI ACNGT 1 cut(s) 149
TaiI ACGT 2 cut(s) 421, 711
TaqI TCGA 3 cut(s) 66, 75, 81
TasI AATT 5 cut(s) 286, 506, 518, 618, 786
TauI GCSGC 2 cut(s) 231, 234
TfiI GAWTC 2 cut(s) 26, 107
TscAI CASTG 2 cut(s) 154, 325
TseI GCWGC 3 cut(s) 225, 344, 634
TspDTI ATGAA 5 cut(s) 120, 506, 582, 707, 732
TspRI CASTG 2 cut(s) 154, 325
XapI RAATTY 3 cut(s) 286, 506, 618
XceI RCATGY 3 cut(s) 282, 390, 641
XmiI GTMKAC 1 cut(s) 315
XmnI GAANNNNTTC 1 cut(s) 518
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.