AT4G29820

Cleavage and polyadenylation specificity factor subunit 5-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0012542
Physical Location & Seq
Reverse (-)
14595680 .. 14597516
1837 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G29820.1

Sequence Viewer

Length: 669 bp
ATGGGTGAAGAAGCTCGAGCGTTAGATATGGAGGAGATCAGTGACAACACGACGAGACGAAACGATGTCGTTCATGACTTGATGGTTGATTTATACCCGCTTAGCAGCTACTACTTCGGTTCAAAAGAAGCTCTTCGCGTCAAGGACGAGATTATCTCTGATCGAGTCATCAGATTGAAATCCAATTATGCTGCTCATGGATTGAGAACTTGCGTTGAAGCTGTTCTTCTGGTTGAGTTGTTCAAGCATCCTCATGTTTTGCTTCTTCAATATAGAAACTCCATTTTCAAGCTTCCTGGTGGTCGTTTGAGACCTGGAGAATCAGATATTGAAGGTCTAAAACGGAAACTAGCATCAAAGCTATCGGTTAACGAAAATGTGGGTGTTTCGGGTTATGAGGTAGGAGAATGTATTGGGATGTGGTGGAGACCCAACTTTGAGACATTGATGTATCCTTTCTTGCCACCTAATATTAAACACCCAAAGGAATGCACAAAGCTTTTTCTTGTGAGATTACCGGTACATCAACAGTTTGTTGTGCCTAAGAACTTCAAACTCCTCGCTGTTCCATTGTGTCAACTCCATGAAAATGAAAAGACTTATGGGCCGATCATGTCGCAAATTCCTAAGCTTCTTTCGAAATTCTCCTTCAACATGATGGAGATATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03015 map03015
Pfam Domains
Protein Families
NUDIX_2

Protein Analysis

222

Amino Acids

25.56

Weight (kDa)

8.59

Isoelectric Point (pI)

37.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX_2 PF13869 28 - 215 8.8e-79 Nucleotide hydrolase
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)
AccII CGCG 1 cut(s) 138
AciI CCGC 1 cut(s) 98
AcsI RAATTY 2 cut(s) 621, 641
AfaI GTAC 1 cut(s) 522
AgeI ACCGGT 1 cut(s) 517
AgsI TTSAA 9 cut(s) 123, 178, 218, 244, 269, 289, 332, 553, 652
AjnI CCWGG 2 cut(s) 295, 313
AluBI AGCT 8 cut(s) 14, 108, 131, 221, 292, 361, 499, 631
AluI AGCT 8 cut(s) 14, 108, 131, 221, 292, 361, 499, 631
Alw26I GTCTC 4 cut(s) 49, 304, 421, 434
Ama87I CYCGRG 1 cut(s) 15
AoxI GGCC 1 cut(s) 605
ApeKI GCWGC 2 cut(s) 105, 191
ApoI RAATTY 2 cut(s) 621, 641
AsiGI ACCGGT 1 cut(s) 517
Asp700I GAANNNNTTC 2 cut(s) 132, 222
AspS9I GGNCC 1 cut(s) 605
AsuHPI GGTGA 1 cut(s) 17
AsuII TTCGAA 1 cut(s) 638
AvaI CYCGRG 1 cut(s) 15
BbvI GCAGC 2 cut(s) 117, 178
BccI CCATC 2 cut(s) 76, 652
BciT130I CCWGG 2 cut(s) 297, 315
BciVI GTATCC 1 cut(s) 462
BcoDI GTCTC 4 cut(s) 49, 304, 421, 434
BfaI CTAG 1 cut(s) 350
BfuI GTATCC 1 cut(s) 462
BisI GCNGC 2 cut(s) 106, 192
BlpI GCTNAGC 1 cut(s) 101
BlsI GCNGC 2 cut(s) 107, 193
Bme1390I CCNGG 2 cut(s) 297, 315
BmeT110I CYCGRG 1 cut(s) 15
BmgT120I GGNCC 1 cut(s) 605
BmrFI CCNGG 2 cut(s) 297, 315
BmsI GCATC 2 cut(s) 256, 362
BplI GAGNNNNNCTC 2 cut(s) 140, 172
BpmI CTGGAG 1 cut(s) 336
Bpu10I CCTNAGC 1 cut(s) 627
Bpu1102I GCTNAGC 1 cut(s) 101
Bpu14I TTCGAA 1 cut(s) 638
BsaBI GATNNNNATC 1 cut(s) 178
BsaI GGTCTC 2 cut(s) 304, 421
BsaWI WCCGGW 1 cut(s) 517
Bse118I RCCGGY 1 cut(s) 517
Bse8I GATNNNNATC 1 cut(s) 178
BseBI CCWGG 2 cut(s) 297, 315
BseGI GGATG 2 cut(s) 247, 423
BseJI GATNNNNATC 1 cut(s) 178
BseRI GAGGAG 2 cut(s) 47, 548
BseXI GCAGC 2 cut(s) 117, 178
Bsh1236I CGCG 1 cut(s) 138
BshFI GGCC 1 cut(s) 607
BshTI ACCGGT 1 cut(s) 517
BsiHKCI CYCGRG 1 cut(s) 15
BsiSI CCGG 1 cut(s) 518
BsmAI GTCTC 4 cut(s) 49, 304, 421, 434
BsmBI CGTCTC 1 cut(s) 49
BsmI GAATGC 1 cut(s) 494
BsnI GGCC 1 cut(s) 607
Bso31I GGTCTC 2 cut(s) 304, 421
BsoBI CYCGRG 1 cut(s) 15
Bsp119I TTCGAA 1 cut(s) 638
Bsp143I GATC 3 cut(s) 36, 160, 609
Bsp1720I GCTNAGC 1 cut(s) 101
BspACI CCGC 1 cut(s) 98
BspANI GGCC 1 cut(s) 607
BspFNI CGCG 1 cut(s) 138
BspHI TCATGA 1 cut(s) 73
BspQI GCTCTTC 1 cut(s) 138
BspT104I TTCGAA 1 cut(s) 638
BspTNI GGTCTC 2 cut(s) 304, 421
BsrFI RCCGGY 1 cut(s) 517
BssAI RCCGGY 1 cut(s) 517
BssMI GATC 3 cut(s) 36, 160, 609
Bst2UI CCWGG 2 cut(s) 297, 315
Bst4CI ACNGT 1 cut(s) 531
Bst6I CTCTTC 1 cut(s) 138
BstBI TTCGAA 1 cut(s) 638
BstDEI CTNAG 3 cut(s) 101, 543, 627
BstF5I GGATG 2 cut(s) 247, 423
BstFNI CGCG 1 cut(s) 138
BstKTI GATC 3 cut(s) 39, 163, 612
BstMAI GTCTC 4 cut(s) 49, 304, 421, 434
BstMBI GATC 3 cut(s) 36, 160, 609
BstNI CCWGG 2 cut(s) 297, 315
BstSCI CCNGG 2 cut(s) 295, 313
BstUI CGCG 1 cut(s) 138
BstV1I GCAGC 2 cut(s) 117, 178
BsuI GTATCC 1 cut(s) 462
BsuRI GGCC 1 cut(s) 607
BtsCI GGATG 2 cut(s) 247, 423
BtsIMutI CAGTG 1 cut(s) 46
CciI TCATGA 1 cut(s) 73
Cfr10I RCCGGY 1 cut(s) 517
Cfr13I GGNCC 1 cut(s) 605
CseI GACGC 1 cut(s) 127
Csp6I GTAC 1 cut(s) 521
CspAI ACCGGT 1 cut(s) 517
CviAII CATG 6 cut(s) 74, 197, 254, 584, 613, 655
CviJI RGCY 9 cut(s) 14, 108, 131, 221, 292, 361, 499, 607, 631
CviKI_1 RGCY 9 cut(s) 14, 108, 131, 221, 292, 361, 499, 607, 631
CviQI GTAC 1 cut(s) 521
DdeI CTNAG 3 cut(s) 101, 543, 627
DpnI GATC 3 cut(s) 38, 162, 611
DpnII GATC 3 cut(s) 36, 160, 609
Eam1104I CTCTTC 1 cut(s) 138
EarI CTCTTC 1 cut(s) 138
Eco31I GGTCTC 2 cut(s) 304, 421
Eco88I CYCGRG 1 cut(s) 15
EcoRII CCWGG 2 cut(s) 295, 313
Esp3I CGTCTC 1 cut(s) 49
FaeI CATG 6 cut(s) 77, 200, 257, 587, 616, 658
FalI AAGNNNNNCTT 4 cut(s) 117, 149, 210, 242
FatI CATG 6 cut(s) 73, 196, 253, 583, 612, 654
FauI CCCGC 1 cut(s) 105
Fnu4HI GCNGC 2 cut(s) 106, 192
FokI GGATG 2 cut(s) 234, 430
Fsp4HI GCNGC 2 cut(s) 106, 192
FspBI CTAG 1 cut(s) 350
GluI GCNGC 2 cut(s) 106, 192
GsuI CTGGAG 1 cut(s) 336
HaeIII GGCC 1 cut(s) 607
HapII CCGG 1 cut(s) 518
HgaI GACGC 1 cut(s) 127
Hin1II CATG 6 cut(s) 77, 200, 257, 587, 616, 658
HincII GTYRAC 2 cut(s) 370, 578
HindII GTYRAC 2 cut(s) 370, 578
HindIII AAGCTT 3 cut(s) 290, 497, 629
HinfI GANTC 2 cut(s) 165, 320
HpaI GTTAAC 1 cut(s) 370
HpaII CCGG 1 cut(s) 518
HphI GGTGA 1 cut(s) 17
Hpy166II GTNNAC 2 cut(s) 370, 578
Hpy188I TCNGA 3 cut(s) 160, 173, 325
Hpy188III TCNNGA 1 cut(s) 74
Hpy8I GTNNAC 2 cut(s) 370, 578
Hpy99I CGWCG 1 cut(s) 55
HpyAV CCTTC 2 cut(s) 326, 658
HpyCH4III ACNGT 1 cut(s) 531
HpyCH4V TGCA 1 cut(s) 492
HpyF3I CTNAG 3 cut(s) 101, 543, 627
Hsp92II CATG 6 cut(s) 77, 200, 257, 587, 616, 658
KspAI GTTAAC 1 cut(s) 370
Kzo9I GATC 3 cut(s) 36, 160, 609
LguI GCTCTTC 1 cut(s) 138
LpnPI CCDG 6 cut(s) 215, 282, 300, 309, 327, 531
Lsp1109I GCAGC 2 cut(s) 117, 178
LweI GCATC 2 cut(s) 256, 362
MaeI CTAG 1 cut(s) 350
MaeIII GTNAC 1 cut(s) 41
MalI GATC 3 cut(s) 38, 162, 611
MboI GATC 3 cut(s) 36, 160, 609
MboII GAAGA 4 cut(s) 20, 125, 218, 257
MluCI AATT 3 cut(s) 184, 621, 641
MlyI GAGTC 1 cut(s) 174
MnlI CCTC 4 cut(s) 25, 261, 391, 569
MroXI GAANNNNTTC 2 cut(s) 132, 222
MseI TTAA 2 cut(s) 369, 474
MslI CAYNNNNRTG 2 cut(s) 252, 588
MspI CCGG 1 cut(s) 518
MspR9I CCNGG 2 cut(s) 297, 315
Mva1269I GAATGC 1 cut(s) 494
MvaI CCWGG 2 cut(s) 297, 315
MvnI CGCG 1 cut(s) 138
NdeII GATC 3 cut(s) 36, 160, 609
NlaIII CATG 6 cut(s) 77, 200, 257, 587, 616, 658
NmuCI GTSAC 1 cut(s) 41
NspV TTCGAA 1 cut(s) 638
PaeR7I CTCGAG 1 cut(s) 15
PagI TCATGA 1 cut(s) 73
PciSI GCTCTTC 1 cut(s) 138
PctI GAATGC 1 cut(s) 494
PdmI GAANNNNTTC 2 cut(s) 132, 222
PfeI GAWTC 1 cut(s) 320
PinAI ACCGGT 1 cut(s) 517
PkrI GCNGC 2 cut(s) 107, 193
PleI GAGTC 1 cut(s) 173
PpsI GAGTC 1 cut(s) 173
Psp6I CCWGG 2 cut(s) 295, 313
PspGI CCWGG 2 cut(s) 295, 313
PspPI GGNCC 1 cut(s) 605
PspXI VCTCGAGB 1 cut(s) 15
RsaI GTAC 1 cut(s) 522
RsaNI GTAC 1 cut(s) 521
RseI CAYNNNNRTG 2 cut(s) 252, 588
SapI GCTCTTC 1 cut(s) 138
SaqAI TTAA 2 cut(s) 369, 474
SatI GCNGC 2 cut(s) 106, 192
Sau3AI GATC 3 cut(s) 36, 160, 609
Sau96I GGNCC 1 cut(s) 605
SchI GAGTC 1 cut(s) 174
ScrFI CCNGG 2 cut(s) 297, 315
SfaNI GCATC 2 cut(s) 256, 362
Sfr274I CTCGAG 1 cut(s) 15
SfuI TTCGAA 1 cut(s) 638
SlaI CTCGAG 1 cut(s) 15
SmiMI CAYNNNNRTG 2 cut(s) 252, 588
SmlI CTYRAG 1 cut(s) 15
SmoI CTYRAG 1 cut(s) 15
Sse9I AATT 3 cut(s) 184, 621, 641
SsiI CCGC 1 cut(s) 98
SspI AATATT 1 cut(s) 472
SspMI CTAG 1 cut(s) 350
StyD4I CCNGG 2 cut(s) 295, 313
TaaI ACNGT 1 cut(s) 531
TaqI TCGA 3 cut(s) 16, 163, 638
TasI AATT 3 cut(s) 184, 621, 641
TfiI GAWTC 1 cut(s) 320
Tru1I TTAA 2 cut(s) 369, 474
Tru9I TTAA 2 cut(s) 369, 474
TscAI CASTG 1 cut(s) 46
TseFI GTSAC 1 cut(s) 41
TseI GCWGC 2 cut(s) 105, 191
Tsp45I GTSAC 1 cut(s) 41
TspDTI ATGAA 3 cut(s) 62, 600, 606
TspGWI ACGGA 1 cut(s) 358
TspRI CASTG 1 cut(s) 46
XapI RAATTY 2 cut(s) 621, 641
XhoI CTCGAG 1 cut(s) 15
XmnI GAANNNNTTC 2 cut(s) 132, 222
XspI CTAG 1 cut(s) 350
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.