AT3G20430

PHAX RNA-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0008081
Physical Location & Seq
Forward (+)
7121062 .. 7123203
2142 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G20430.1

Sequence Viewer

Length: 798 bp
ATGGAGGGAGAAGAGAGTTTGTTGGATGCTATAAATGAAGAAGACGGATTTGAAAACTTGGAGGATGTTGAAATGGTTGATGTTGAAGAAGGGGAGATTGTTGTGGATCATGATTTAGATTCTGGAGAGAGGCAAAATGATGATGGTGATGGAGTCAAAGATAAAGAGGCGATTTTGGGTGAGAAGAATGGACTGCAACAGACAAACAAGAACAAGAGGAAGAAGAAGAAGAAAAAGAGAAAAGGCCCTGTGATGGACAAACCCATGAGTGTAGACTGGTTTGTTAGGGATACTTGTAGACGCCTTAAGGAGAAGAAGTCTTACATGATATACACAGCTGTTGGGTGTCTCGGAATTGCTGCCTTAAGTGATCTTGTCAATGAGGTGGTAGCAATTGAGACCTGTGGAGGTCAGGTGACTGCTGATGGCACTAGGAAACGGACAAGTGGTGGTGTATTGTGGAACATCATCAAAGCGAGACAGCCTGAAGCTTATAGAGAGATAATGAAAAAGACCAAGGAGTTTGAGAAACAATTTAGGCAACCAAACACGAGACCAAAATCAGGGCCTAAAAGAGATCAGGGTAGCTCCTCCGAAGGACTTGCCTCTGGAAATGTATCTGCTGATGAAGCTCTGGTGAGCGAGATGTGTGTTATGCCGGTAGCTGAGCAAACTGAATCCAAACCGGAAAAGGAAAGGAAATCTGTTCATGAGAGGATCAGGGTACCTGTTTCATATGATGACCTTTTCAGAGATGCACCTTTGGATGATTCACTAGCACATCATCCTTCTGCTTAA
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

265

Amino Acids

29.64

Weight (kDa)

5.31

Isoelectric Point (pI)

46.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHAX_RNA-bd PF10258 94 - 174 3.4e-27 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)
Acc65I GGTACC 1 cut(s) 724
AccB1I GGYRCC 1 cut(s) 724
AccI GTMKAC 2 cut(s) 273, 298
AclWI GGATC 2 cut(s) 114, 725
AcuI CTGAAG 1 cut(s) 507
AcyI GRCGYC 1 cut(s) 301
AfaI GTAC 1 cut(s) 726
AfiI CCNNNNNNNGG 2 cut(s) 253, 563
AflII CTTAAG 2 cut(s) 305, 364
AgsI TTSAA 3 cut(s) 53, 71, 86
AluBI AGCT 5 cut(s) 338, 491, 588, 632, 665
AluI AGCT 5 cut(s) 338, 491, 588, 632, 665
Alw26I GTCTC 4 cut(s) 353, 392, 472, 547
AlwI GGATC 2 cut(s) 114, 725
AoxI GGCC 2 cut(s) 244, 566
ApeKI GCWGC 1 cut(s) 359
Asp718I GGTACC 1 cut(s) 724
AspS9I GGNCC 2 cut(s) 245, 566
AsuHPI GGTGA 4 cut(s) 158, 191, 427, 649
BanI GGYRCC 1 cut(s) 724
BarI GAAGNNNNNNTAC 2 cut(s) 305, 337
BauI CACGAG 1 cut(s) 550
BbsI GAAGAC 1 cut(s) 48
BbvI GCAGC 1 cut(s) 346
BccI CCATC 4 cut(s) 137, 143, 247, 419
BcgI CGANNNNNNTGC 2 cut(s) 584, 618
BciVI GTATCC 1 cut(s) 283
BcoDI GTCTC 4 cut(s) 353, 392, 472, 547
BfaI CTAG 2 cut(s) 432, 776
BfrI CTTAAG 2 cut(s) 305, 364
BfuI GTATCC 1 cut(s) 283
BisI GCNGC 1 cut(s) 360
BlpI GCTNAGC 1 cut(s) 666
BlsI GCNGC 1 cut(s) 361
BmgT120I GGNCC 2 cut(s) 245, 566
BmiI GGNNCC 1 cut(s) 726
BmsI GCATC 2 cut(s) 16, 745
BpiI GAAGAC 1 cut(s) 48
BpmI CTGGAG 1 cut(s) 144
Bpu1102I GCTNAGC 1 cut(s) 666
BsaHI GRCGYC 1 cut(s) 301
BsaI GGTCTC 2 cut(s) 392, 547
BsaJI CCNNGG 1 cut(s) 516
BsaWI WCCGGW 1 cut(s) 685
BsaXI ACNNNNNCTCC 4 cut(s) 302, 332, 399, 429
Bsc4I CCNNNNNNNGG 2 cut(s) 253, 563
Bse118I RCCGGY 1 cut(s) 658
Bse1I ACTGG 1 cut(s) 281
BseDI CCNNGG 1 cut(s) 516
BseGI GGATG 4 cut(s) 31, 70, 772, 784
BseLI CCNNNNNNNGG 2 cut(s) 253, 563
BseMII CTCAG 1 cut(s) 657
BseNI ACTGG 1 cut(s) 281
BseRI GAGGAG 1 cut(s) 580
BseXI GCAGC 1 cut(s) 346
BshFI GGCC 2 cut(s) 246, 568
BshNI GGYRCC 1 cut(s) 724
BsiSI CCGG 2 cut(s) 659, 686
BslI CCNNNNNNNGG 2 cut(s) 253, 563
BsmAI GTCTC 4 cut(s) 353, 392, 472, 547
BsnI GGCC 2 cut(s) 246, 568
Bso31I GGTCTC 2 cut(s) 392, 547
Bsp143I GATC 4 cut(s) 106, 370, 577, 717
Bsp1720I GCTNAGC 1 cut(s) 666
BspANI GGCC 2 cut(s) 246, 568
BspCNI CTCAG 1 cut(s) 658
BspHI TCATGA 2 cut(s) 109, 709
BspLI GGNNCC 1 cut(s) 726
BspPI GGATC 2 cut(s) 114, 725
BspT107I GGYRCC 1 cut(s) 724
BspTI CTTAAG 2 cut(s) 305, 364
BspTNI GGTCTC 2 cut(s) 392, 547
BsrFI RCCGGY 1 cut(s) 658
BsrI ACTGG 1 cut(s) 281
BssAI RCCGGY 1 cut(s) 658
BssECI CCNNGG 1 cut(s) 516
BssMI GATC 4 cut(s) 106, 370, 577, 717
BssNI GRCGYC 1 cut(s) 301
BssSI CACGAG 1 cut(s) 550
BssT1I CCWWGG 1 cut(s) 516
Bst2BI CACGAG 1 cut(s) 550
Bst6I CTCTTC 1 cut(s) 6
BstACI GRCGYC 1 cut(s) 301
BstAFI CTTAAG 2 cut(s) 305, 364
BstDEI CTNAG 1 cut(s) 666
BstF5I GGATG 4 cut(s) 31, 70, 772, 784
BstKTI GATC 4 cut(s) 109, 373, 580, 720
BstMAI GTCTC 4 cut(s) 353, 392, 472, 547
BstMBI GATC 4 cut(s) 106, 370, 577, 717
BstMWI GCNNNNNNNGC 1 cut(s) 629
BstV1I GCAGC 1 cut(s) 346
BstV2I GAAGAC 1 cut(s) 48
BsuI GTATCC 1 cut(s) 283
BsuRI GGCC 2 cut(s) 246, 568
BtsCI GGATG 4 cut(s) 31, 70, 772, 784
CciI TCATGA 2 cut(s) 109, 709
Cfr10I RCCGGY 1 cut(s) 658
Cfr13I GGNCC 2 cut(s) 245, 566
CseI GACGC 1 cut(s) 309
Csp6I GTAC 1 cut(s) 725
CviAII CATG 4 cut(s) 110, 265, 325, 710
CviJI RGCY 8 cut(s) 246, 338, 484, 491, 568, 588, 632, 665
CviKI_1 RGCY 8 cut(s) 246, 338, 484, 491, 568, 588, 632, 665
CviQI GTAC 1 cut(s) 725
DdeI CTNAG 1 cut(s) 666
DpnI GATC 4 cut(s) 108, 372, 579, 719
DpnII GATC 4 cut(s) 106, 370, 577, 717
Eam1104I CTCTTC 1 cut(s) 6
EarI CTCTTC 1 cut(s) 6
Eco130I CCWWGG 1 cut(s) 516
Eco31I GGTCTC 2 cut(s) 392, 547
Eco57I CTGAAG 1 cut(s) 507
EcoO109I RGGNCCY 2 cut(s) 245, 566
EcoT14I CCWWGG 1 cut(s) 516
ErhI CCWWGG 1 cut(s) 516
FaeI CATG 4 cut(s) 113, 268, 328, 713
FatI CATG 4 cut(s) 109, 264, 324, 709
FauNDI CATATG 1 cut(s) 736
FblI GTMKAC 2 cut(s) 273, 298
Fnu4HI GCNGC 1 cut(s) 360
FokI GGATG 4 cut(s) 38, 77, 771, 779
Fsp4HI GCNGC 1 cut(s) 360
FspBI CTAG 2 cut(s) 432, 776
GluI GCNGC 1 cut(s) 360
GsuI CTGGAG 1 cut(s) 144
HaeIII GGCC 2 cut(s) 246, 568
HapII CCGG 2 cut(s) 659, 686
HgaI GACGC 1 cut(s) 309
Hin1I GRCGYC 1 cut(s) 301
Hin1II CATG 4 cut(s) 113, 268, 328, 713
HindIII AAGCTT 1 cut(s) 489
HinfI GANTC 4 cut(s) 119, 153, 677, 770
HpaII CCGG 2 cut(s) 659, 686
HphI GGTGA 4 cut(s) 158, 191, 427, 649
Hpy166II GTNNAC 2 cut(s) 274, 299
Hpy188I TCNGA 3 cut(s) 353, 595, 752
Hpy188III TCNNGA 4 cut(s) 110, 123, 609, 710
Hpy8I GTNNAC 2 cut(s) 274, 299
HpyAV CCTTC 3 cut(s) 83, 590, 798
HpyCH4V TGCA 2 cut(s) 196, 758
HpyF10VI GCNNNNNNNGC 1 cut(s) 629
HpyF3I CTNAG 1 cut(s) 666
Hsp92I GRCGYC 1 cut(s) 301
Hsp92II CATG 4 cut(s) 113, 268, 328, 713
KpnI GGTACC 1 cut(s) 728
Kzo9I GATC 4 cut(s) 106, 370, 577, 717
LmnI GCTCC 1 cut(s) 593
Lsp1109I GCAGC 1 cut(s) 346
LweI GCATC 2 cut(s) 16, 745
MaeI CTAG 2 cut(s) 432, 776
MaeIII GTNAC 1 cut(s) 415
MalI GATC 4 cut(s) 108, 372, 579, 719
MboI GATC 4 cut(s) 106, 370, 577, 717
MfeI CAATTG 1 cut(s) 393
MluCI AATT 3 cut(s) 354, 393, 533
MlyI GAGTC 1 cut(s) 162
MnlI CCTC 9 cut(s) 55, 123, 160, 210, 376, 401, 601, 616, 708
MseI TTAA 3 cut(s) 306, 365, 796
MspA1I CMGCKG 1 cut(s) 338
MspCI CTTAAG 2 cut(s) 305, 364
MspI CCGG 2 cut(s) 659, 686
MunI CAATTG 1 cut(s) 393
MwoI GCNNNNNNNGC 1 cut(s) 629
NdeI CATATG 1 cut(s) 736
NdeII GATC 4 cut(s) 106, 370, 577, 717
NlaIII CATG 4 cut(s) 113, 268, 328, 713
NlaIV GGNNCC 1 cut(s) 726
NmuCI GTSAC 1 cut(s) 415
PagI TCATGA 2 cut(s) 109, 709
PfeI GAWTC 3 cut(s) 119, 677, 770
PkrI GCNGC 1 cut(s) 361
PleI GAGTC 1 cut(s) 161
PpsI GAGTC 1 cut(s) 161
PspN4I GGNNCC 1 cut(s) 726
PspPI GGNCC 2 cut(s) 245, 566
PvuII CAGCTG 1 cut(s) 338
RsaI GTAC 1 cut(s) 726
RsaNI GTAC 1 cut(s) 725
SaqAI TTAA 3 cut(s) 306, 365, 796
SatI GCNGC 1 cut(s) 360
Sau3AI GATC 4 cut(s) 106, 370, 577, 717
Sau96I GGNCC 2 cut(s) 245, 566
SchI GAGTC 1 cut(s) 162
SfaNI GCATC 2 cut(s) 16, 745
SmlI CTYRAG 2 cut(s) 305, 364
SmoI CTYRAG 2 cut(s) 305, 364
Sse9I AATT 3 cut(s) 354, 393, 533
SspMI CTAG 2 cut(s) 432, 776
StyI CCWWGG 1 cut(s) 516
TasI AATT 3 cut(s) 354, 393, 533
TfiI GAWTC 3 cut(s) 119, 677, 770
Tru1I TTAA 3 cut(s) 306, 365, 796
Tru9I TTAA 3 cut(s) 306, 365, 796
TseFI GTSAC 1 cut(s) 415
TseI GCWGC 1 cut(s) 359
Tsp45I GTSAC 1 cut(s) 415
TspDTI ATGAA 5 cut(s) 51, 521, 642, 698, 723
TspGWI ACGGA 2 cut(s) 60, 454
Vha464I CTTAAG 2 cut(s) 305, 364
XmiI GTMKAC 2 cut(s) 273, 298
XspI CTAG 2 cut(s) 432, 776
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.