RchiOBHm_Chr6g0310501

PHAX RNA-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0008081
Physical Location & Seq
Forward (+)
67834613 .. 67836458
1846 bp
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UTR
Exon/CDS
Intron
PRQ27923

Sequence Viewer

Length: 438 bp
ATGTATGTGAATGCAATCCAGGCATGTGGAGGTCAGATGACTGCTAATGGCAGACGTTTGCGGACAGGTGGTGGTCTGCTGTGGAATATCATCAAAGCAAGAGAGCCAAAGGCCTATAAAGAGATCATGAAGAAAGCCAAGGAATTTGAGAAGCAATTCAAGCAACCATATAATAGACAACCACCAACAAACCAAAGTAAAGTAGAACCATCCCAAGTATTTGCTGCTACATCAGAGGATGCGACTCCAGCCAAATTTTCAAATGATTTGCAGCATGTATCTGAAATGACTGAAATGACCGAAATGCCTGAAGTTCAGACTAGAGACAATCAGTCAAATCCCCGAAGTGAACACGTTTCTGTTCATGATAGGCTAAGGGTACCTGTTTCATATGATGATGACCTGCTTACAGGGGAACCCAAAGATGATGCAATTTGA
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

145

Amino Acids

16.44

Weight (kDa)

6.31

Isoelectric Point (pI)

64.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHAX_RNA-bd PF10258 3 - 48 1.4e-12 Phosphorylated adapter RNA export protein, RNA-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 411
Acc65I GGTACC 1 cut(s) 379
AccB1I GGYRCC 1 cut(s) 379
AciI CCGC 1 cut(s) 61
AcsI RAATTY 2 cut(s) 143, 254
AcuI CTGAAG 1 cut(s) 330
AfaI GTAC 1 cut(s) 381
AflIII ACRYGT 1 cut(s) 352
AgsI TTSAA 2 cut(s) 160, 261
AhdI GACNNNNNGTC 1 cut(s) 331
AjnI CCWGG 1 cut(s) 18
Alw26I GTCTC 1 cut(s) 318
AoxI GGCC 1 cut(s) 111
ApeKI GCWGC 2 cut(s) 224, 271
ApoI RAATTY 2 cut(s) 143, 254
Asp700I GAANNNNTTC 1 cut(s) 155
Asp718I GGTACC 1 cut(s) 379
BanI GGYRCC 1 cut(s) 379
BbvI GCAGC 2 cut(s) 211, 283
BccI CCATC 1 cut(s) 217
BciT130I CCWGG 1 cut(s) 20
BcoDI GTCTC 1 cut(s) 318
BfaI CTAG 1 cut(s) 321
BfuAI ACCTGC 1 cut(s) 411
BisI GCNGC 2 cut(s) 225, 272
BlsI GCNGC 2 cut(s) 226, 273
Bme1390I CCNGG 1 cut(s) 20
BmeRI GACNNNNNGTC 1 cut(s) 331
BmiI GGNNCC 2 cut(s) 381, 417
BmrFI CCNGG 1 cut(s) 20
BmsI GCATC 2 cut(s) 229, 418
BpmI CTGGAG 1 cut(s) 231
Bpu10I CCTNAGC 1 cut(s) 374
BsaJI CCNNGG 1 cut(s) 138
BseBI CCWGG 1 cut(s) 20
BseDI CCNNGG 1 cut(s) 138
BseGI GGATG 2 cut(s) 209, 244
BseXI GCAGC 2 cut(s) 211, 283
BshFI GGCC 1 cut(s) 113
BshNI GGYRCC 1 cut(s) 379
BsmAI GTCTC 1 cut(s) 318
BsmI GAATGC 1 cut(s) 16
BsnI GGCC 1 cut(s) 113
Bsp143I GATC 1 cut(s) 123
BspACI CCGC 1 cut(s) 61
BspANI GGCC 1 cut(s) 113
BspHI TCATGA 2 cut(s) 126, 364
BspLI GGNNCC 2 cut(s) 381, 417
BspMI ACCTGC 1 cut(s) 411
BspT107I GGYRCC 1 cut(s) 379
BssECI CCNNGG 1 cut(s) 138
BssMI GATC 1 cut(s) 123
BssT1I CCWWGG 1 cut(s) 138
Bst2UI CCWGG 1 cut(s) 20
BstDEI CTNAG 1 cut(s) 374
BstF5I GGATG 2 cut(s) 209, 244
BstKTI GATC 1 cut(s) 126
BstMAI GTCTC 1 cut(s) 318
BstMBI GATC 1 cut(s) 123
BstMWI GCNNNNNNNGC 3 cut(s) 20, 160, 248
BstNI CCWGG 1 cut(s) 20
BstNSI RCATGY 2 cut(s) 27, 278
BstSCI CCNGG 1 cut(s) 18
BstV1I GCAGC 2 cut(s) 211, 283
BstXI CCANNNNNNTGG 1 cut(s) 26
BsuRI GGCC 1 cut(s) 113
BtsCI GGATG 2 cut(s) 209, 244
BveI ACCTGC 1 cut(s) 411
CciI TCATGA 2 cut(s) 126, 364
Csp6I GTAC 1 cut(s) 380
CviAII CATG 4 cut(s) 24, 127, 275, 365
CviJI RGCY 5 cut(s) 106, 113, 137, 251, 373
CviKI_1 RGCY 5 cut(s) 106, 113, 137, 251, 373
CviQI GTAC 1 cut(s) 380
DdeI CTNAG 1 cut(s) 374
DpnI GATC 1 cut(s) 125
DpnII GATC 1 cut(s) 123
DriI GACNNNNNGTC 1 cut(s) 331
Eam1105I GACNNNNNGTC 1 cut(s) 331
Eco130I CCWWGG 1 cut(s) 138
Eco147I AGGCCT 1 cut(s) 113
Eco57I CTGAAG 1 cut(s) 330
EcoRII CCWGG 1 cut(s) 18
EcoT14I CCWWGG 1 cut(s) 138
ErhI CCWWGG 1 cut(s) 138
FaeI CATG 4 cut(s) 27, 130, 278, 368
FatI CATG 4 cut(s) 23, 126, 274, 364
FauNDI CATATG 1 cut(s) 391
Fnu4HI GCNGC 2 cut(s) 225, 272
FokI GGATG 2 cut(s) 196, 251
Fsp4HI GCNGC 2 cut(s) 225, 272
FspBI CTAG 1 cut(s) 321
GluI GCNGC 2 cut(s) 225, 272
GsuI CTGGAG 1 cut(s) 231
HaeIII GGCC 1 cut(s) 113
Hin1II CATG 4 cut(s) 27, 130, 278, 368
HinfI GANTC 1 cut(s) 244
Hpy166II GTNNAC 1 cut(s) 350
Hpy188I TCNGA 4 cut(s) 36, 235, 283, 318
Hpy188III TCNNGA 2 cut(s) 127, 365
Hpy8I GTNNAC 1 cut(s) 350
HpyCH4IV ACGT 2 cut(s) 55, 354
HpyCH4V TGCA 3 cut(s) 14, 271, 431
HpyF10VI GCNNNNNNNGC 3 cut(s) 20, 160, 248
HpyF3I CTNAG 1 cut(s) 374
HpySE526I ACGT 2 cut(s) 55, 354
Hsp92II CATG 4 cut(s) 27, 130, 278, 368
KpnI GGTACC 1 cut(s) 383
Kzo9I GATC 1 cut(s) 123
LpnPI CCDG 8 cut(s) 5, 32, 51, 261, 321, 396, 396, 416
Lsp1109I GCAGC 2 cut(s) 211, 283
LweI GCATC 2 cut(s) 229, 418
MaeI CTAG 1 cut(s) 321
MaeII ACGT 2 cut(s) 55, 354
MalI GATC 1 cut(s) 125
MboI GATC 1 cut(s) 123
MboII GAAGA 1 cut(s) 142
MluCI AATT 4 cut(s) 143, 155, 254, 432
MlyI GAGTC 1 cut(s) 238
MnlI CCTC 2 cut(s) 23, 229
MroXI GAANNNNTTC 1 cut(s) 155
MspR9I CCNGG 1 cut(s) 20
Mva1269I GAATGC 1 cut(s) 16
MvaI CCWGG 1 cut(s) 20
MwoI GCNNNNNNNGC 3 cut(s) 20, 160, 248
NdeI CATATG 1 cut(s) 391
NdeII GATC 1 cut(s) 123
NlaIII CATG 4 cut(s) 27, 130, 278, 368
NlaIV GGNNCC 2 cut(s) 381, 417
NspI RCATGY 2 cut(s) 27, 278
PagI TCATGA 2 cut(s) 126, 364
PceI AGGCCT 1 cut(s) 113
PctI GAATGC 1 cut(s) 16
PdmI GAANNNNTTC 1 cut(s) 155
PkrI GCNGC 2 cut(s) 226, 273
PleI GAGTC 1 cut(s) 238
PpsI GAGTC 1 cut(s) 238
Psp6I CCWGG 1 cut(s) 18
PspGI CCWGG 1 cut(s) 18
PspN4I GGNNCC 2 cut(s) 381, 417
RsaI GTAC 1 cut(s) 381
RsaNI GTAC 1 cut(s) 380
SatI GCNGC 2 cut(s) 225, 272
Sau3AI GATC 1 cut(s) 123
SchI GAGTC 1 cut(s) 238
ScrFI CCNGG 1 cut(s) 20
SetI ASST 6 cut(s) 34, 58, 70, 357, 385, 405
SfaNI GCATC 2 cut(s) 229, 418
Sse9I AATT 4 cut(s) 143, 155, 254, 432
SseBI AGGCCT 1 cut(s) 113
SsiI CCGC 1 cut(s) 61
SspMI CTAG 1 cut(s) 321
StuI AGGCCT 1 cut(s) 113
StyD4I CCNGG 1 cut(s) 18
StyI CCWWGG 1 cut(s) 138
TaiI ACGT 2 cut(s) 58, 357
TaqII GACCGA 1 cut(s) 314
TasI AATT 4 cut(s) 143, 155, 254, 432
TseI GCWGC 2 cut(s) 224, 271
TspDTI ATGAA 3 cut(s) 143, 353, 378
XapI RAATTY 2 cut(s) 143, 254
XceI RCATGY 2 cut(s) 27, 278
XmnI GAANNNNTTC 1 cut(s) 155
XspI CTAG 1 cut(s) 321
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.