AT5G09940

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0017139
Physical Location & Seq
Forward (+)
3101192 .. 3101833
642 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G09940.1

Sequence Viewer

Length: 642 bp
ATGTATCAAGAAACTAAGCAATTTTATCATTTATGGCTACTTGCTGTCCAAGAAAGAGACGAAGCAAGAGAACATTTGAAACAATCACTCGTCGAACTGTCTAGATTACAGGAATGTTTCAACACTATTCTTTTGTCCGAAGACCAACAAATACCCCATTATTCTTACTCAGAAACCACAGACGAAACCCCCGATCATCAAAAACTGTATAGTTACAATAACTTCTCCAACGAGTCTCCTTCGCGATTCTCGTCCGCATCGTCGATCGATCTCGTCTCTAACTCAACTGTCTATTCCTCGCCGGAGACCTACGACTCTGATTGTTACAGCCTCCGGACGTTGCAGATGGGTTTTGCATTTGAGGAGAAGAAAGATTTTGAGACCCTTGTGCTGGAGAATATAGGACTCGGAAGAATGTTGCCGGAGAACGGTAAGTTCCAGCAAGCTATCATTGAAGCTGGATCGTTGGTTGACTCATTGTTCATAACCGGTCCGATTCCAAAATGGAGAAATCCTCCGGTTCAAATGTTGAGTCAAAGACCGCTTCTGAGTCATTCTATCGGAAAATGGAATTATGGTGGTCAGGGGATCATAAACCGGTCTTTCTCTGGCAAAATGCCACGGTTAAGCTTGATGCCTTAA
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
AvrRpt-cleavage

Protein Analysis

213

Amino Acids

24.48

Weight (kDa)

5.26

Isoelectric Point (pI)

61.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF1635 PF07795 4 - 178 1.8e-19 Protein of unknown function (DUF1635)
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: OG0017139)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G09940
fragaria_vesca FvH4_6g14520
malus_domestica MD12G1136600.v1.1
rosa_chinensis RchiOBHm_Chr3g0467601
rosa_laevigata RLG00000024486
rosa_multiflora Rmu_sc0011632.1_g000011
rosa_roxburghii Rroxscaffold_6G00413560
rosa_rugosa Rorug03G0088400
rosa_samantha Rh3AG136700 Rh3BG158500 Rh3CG158200 Rh3DG159000
rosa_wichuraiana Rw3G012950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 244
AccIII TCCGGA 1 cut(s) 333
AciI CCGC 2 cut(s) 255, 542
AclWI GGATC 2 cut(s) 469, 596
AfiI CCNNNNNNNGG 2 cut(s) 391, 428
AgeI ACCGGT 2 cut(s) 488, 597
AgsI TTSAA 4 cut(s) 79, 121, 455, 524
AluBI AGCT 3 cut(s) 446, 458, 630
AluI AGCT 3 cut(s) 446, 458, 630
Alw26I GTCTC 5 cut(s) 51, 240, 280, 299, 374
AlwI GGATC 2 cut(s) 469, 596
Aor13HI TCCGGA 1 cut(s) 333
ArsI GACNNNNNNTTYG 2 cut(s) 517, 549
AsiGI ACCGGT 2 cut(s) 488, 597
AspS9I GGNCC 1 cut(s) 491
AvaII GGWCC 1 cut(s) 491
BbsI GAAGAC 1 cut(s) 147
BccI CCATC 1 cut(s) 340
BcoDI GTCTC 5 cut(s) 51, 240, 280, 299, 374
BfaI CTAG 1 cut(s) 102
Bme18I GGWCC 1 cut(s) 491
BmgT120I GGNCC 1 cut(s) 491
BmsI GCATC 2 cut(s) 266, 624
BpiI GAAGAC 1 cut(s) 147
BplI GAGNNNNNCTC 2 cut(s) 499, 531
BpmI CTGGAG 1 cut(s) 413
Bsa29I ATCGAT 1 cut(s) 267
BsaI GGTCTC 2 cut(s) 299, 374
BsaJI CCNNGG 1 cut(s) 620
BsaWI WCCGGW 4 cut(s) 333, 488, 517, 597
Bsc4I CCNNNNNNNGG 2 cut(s) 391, 428
Bse118I RCCGGY 2 cut(s) 488, 597
BseAI TCCGGA 1 cut(s) 333
BseCI ATCGAT 1 cut(s) 267
BseDI CCNNGG 1 cut(s) 620
BseLI CCNNNNNNNGG 2 cut(s) 391, 428
BseMII CTCAG 2 cut(s) 183, 539
BseRI GAGGAG 1 cut(s) 377
Bsh1236I CGCG 1 cut(s) 244
Bsh1285I CGRYCG 1 cut(s) 267
BshTI ACCGGT 2 cut(s) 488, 597
BshVI ATCGAT 1 cut(s) 267
BsiEI CGRYCG 1 cut(s) 267
BsiSI CCGG 6 cut(s) 302, 334, 422, 489, 518, 598
BslI CCNNNNNNNGG 2 cut(s) 391, 428
BsmAI GTCTC 5 cut(s) 51, 240, 280, 299, 374
BsmBI CGTCTC 2 cut(s) 51, 280
Bso31I GGTCTC 2 cut(s) 299, 374
Bsp13I TCCGGA 1 cut(s) 333
Bsp143I GATC 5 cut(s) 193, 264, 268, 461, 588
Bsp68I TCGCGA 1 cut(s) 244
BspACI CCGC 2 cut(s) 255, 542
BspCNI CTCAG 2 cut(s) 182, 540
BspDI ATCGAT 1 cut(s) 267
BspEI TCCGGA 1 cut(s) 333
BspFNI CGCG 1 cut(s) 244
BspPI GGATC 2 cut(s) 469, 596
BspTNI GGTCTC 2 cut(s) 299, 374
BsrFI RCCGGY 2 cut(s) 488, 597
BssAI RCCGGY 2 cut(s) 488, 597
BssECI CCNNGG 1 cut(s) 620
BssMI GATC 5 cut(s) 193, 264, 268, 461, 588
Bst4CI ACNGT 5 cut(s) 99, 207, 289, 431, 624
BstC8I GCNNGC 1 cut(s) 444
BstDEI CTNAG 3 cut(s) 15, 169, 548
BstDSI CCRYGG 1 cut(s) 620
BstFNI CGCG 1 cut(s) 244
BstKTI GATC 5 cut(s) 196, 267, 271, 464, 591
BstMAI GTCTC 5 cut(s) 51, 240, 280, 299, 374
BstMBI GATC 5 cut(s) 193, 264, 268, 461, 588
BstMCI CGRYCG 1 cut(s) 267
BstUI CGCG 1 cut(s) 244
BstV2I GAAGAC 1 cut(s) 147
Bsu15I ATCGAT 1 cut(s) 267
BsuTUI ATCGAT 1 cut(s) 267
BtgI CCRYGG 1 cut(s) 620
BtuMI TCGCGA 1 cut(s) 244
Cac8I GCNNGC 1 cut(s) 444
Cfr10I RCCGGY 2 cut(s) 488, 597
Cfr13I GGNCC 1 cut(s) 491
ClaI ATCGAT 1 cut(s) 267
CpoI CGGWCCG 1 cut(s) 491
CspAI ACCGGT 2 cut(s) 488, 597
CspI CGGWCCG 1 cut(s) 491
CviJI RGCY 5 cut(s) 37, 330, 446, 458, 630
CviKI_1 RGCY 5 cut(s) 37, 330, 446, 458, 630
DdeI CTNAG 3 cut(s) 15, 169, 548
DpnI GATC 5 cut(s) 195, 266, 270, 463, 590
DpnII GATC 5 cut(s) 193, 264, 268, 461, 588
Eco31I GGTCTC 2 cut(s) 299, 374
Eco47I GGWCC 1 cut(s) 491
Esp3I CGTCTC 2 cut(s) 51, 280
FaiI YATR 6 cut(s) 34, 210, 401, 485, 576, 593
FspBI CTAG 1 cut(s) 102
GsuI CTGGAG 1 cut(s) 413
HapII CCGG 6 cut(s) 302, 334, 422, 489, 518, 598
HincII GTYRAC 1 cut(s) 472
HindII GTYRAC 1 cut(s) 472
HindIII AAGCTT 1 cut(s) 628
HinfI GANTC 8 cut(s) 233, 246, 314, 405, 473, 496, 532, 550
HpaII CCGG 6 cut(s) 302, 334, 422, 489, 518, 598
Hpy166II GTNNAC 1 cut(s) 472
Hpy188I TCNGA 7 cut(s) 139, 172, 319, 410, 495, 549, 563
Hpy188III TCNNGA 4 cut(s) 8, 102, 243, 334
Hpy8I GTNNAC 1 cut(s) 472
Hpy99I CGWCG 2 cut(s) 95, 265
HpyAV CCTTC 1 cut(s) 249
HpyCH4III ACNGT 5 cut(s) 99, 207, 289, 431, 624
HpyCH4IV ACGT 1 cut(s) 338
HpyCH4V TGCA 2 cut(s) 343, 356
HpyF3I CTNAG 3 cut(s) 15, 169, 548
HpySE526I ACGT 1 cut(s) 338
Kpn2I TCCGGA 1 cut(s) 333
Kzo9I GATC 5 cut(s) 193, 264, 268, 461, 588
LweI GCATC 2 cut(s) 266, 624
MaeI CTAG 1 cut(s) 102
MaeII ACGT 1 cut(s) 338
MaeIII GTNAC 2 cut(s) 212, 323
MalI GATC 5 cut(s) 195, 266, 270, 463, 590
MboI GATC 5 cut(s) 193, 264, 268, 461, 588
MboII GAAGA 3 cut(s) 152, 379, 423
MluCI AATT 2 cut(s) 20, 571
MlyI GAGTC 6 cut(s) 242, 308, 399, 467, 541, 559
MmeI TCCRAC 1 cut(s) 252
MnlI CCTC 4 cut(s) 307, 341, 355, 525
MroI TCCGGA 1 cut(s) 333
MseI TTAA 2 cut(s) 626, 640
MspI CCGG 6 cut(s) 302, 334, 422, 489, 518, 598
MvnI CGCG 1 cut(s) 244
NdeII GATC 5 cut(s) 193, 264, 268, 461, 588
NruI TCGCGA 1 cut(s) 244
PcsI WCGNNNNNNNCGW 3 cut(s) 189, 248, 257
PfeI GAWTC 2 cut(s) 246, 496
PinAI ACCGGT 2 cut(s) 488, 597
Ple19I CGATCG 1 cut(s) 267
PleI GAGTC 6 cut(s) 241, 308, 399, 467, 540, 558
PpsI GAGTC 6 cut(s) 241, 308, 399, 467, 540, 558
PspPI GGNCC 1 cut(s) 491
PvuI CGATCG 1 cut(s) 267
RruI TCGCGA 1 cut(s) 244
Rsr2I CGGWCCG 1 cut(s) 491
RsrII CGGWCCG 1 cut(s) 491
SaqAI TTAA 2 cut(s) 626, 640
Sau3AI GATC 5 cut(s) 193, 264, 268, 461, 588
Sau96I GGNCC 1 cut(s) 491
SchI GAGTC 6 cut(s) 242, 308, 399, 467, 541, 559
SetI ASST 5 cut(s) 311, 341, 448, 460, 632
SfaNI GCATC 2 cut(s) 266, 624
SinI GGWCC 1 cut(s) 491
Sse9I AATT 2 cut(s) 20, 571
SsiI CCGC 2 cut(s) 255, 542
SspMI CTAG 1 cut(s) 102
TaaI ACNGT 5 cut(s) 99, 207, 289, 431, 624
TaiI ACGT 1 cut(s) 341
TaqI TCGA 3 cut(s) 93, 263, 267
TasI AATT 2 cut(s) 20, 571
TfiI GAWTC 2 cut(s) 246, 496
Tru1I TTAA 2 cut(s) 626, 640
Tru9I TTAA 2 cut(s) 626, 640
TspDTI ATGAA 1 cut(s) 472
VpaK11BI GGWCC 1 cut(s) 491
XbaI TCTAGA 1 cut(s) 101
XspI CTAG 1 cut(s) 102
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.