AT5G18880

BEST Arabidopsis thaliana protein match is

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0012717
Physical Location & Seq
Reverse (-)
6300535 .. 6301422
888 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G18880.1

Sequence Viewer

Length: 888 bp
ATGATTCAGCTGAAACCTTCCATTGTGGAGTTCATGAGGTGTGATATGGGTAATGGTGAATCCGCCTCTTTCTGGTATGATGCCTGGACGGATTTTGGACAGCTTTTAACTTTTCTTGGAGCGGCTGGTCCTCGACAACTTCGTATAAGGCAAGATGCTCGCGTAGTTGAAGCTTCAAGAAATGGGGATTGGTTCTTGCCAGCTGCAAGATCTGATAATTCGCAGCTTTTCTTGGCTGCTCTTACGATGGCCCCTGTGCCTCATGAAAGTAGGGGACAAGACTCTTTCCTATGGCGTAACGCTGCAGGTTCGTATCTACCTTCTTTCTCTTCTCGTGACACTTGGGAACAGATTCGGGTTCACTCACCCACTGTTCCATGGGCAAAAGTTGTTTGGTTTAAAGAGTACATCCCTCGGTTCTCTCTTATCACTTGGATGAGTTTTCTTGAAAGGCTGCCCACGAGAGATCGACTGAGAGGTTGGGGCATGAATATTCCCTCCTCTTGGGTTCTTTGCTCAAATGGGGATGAAACTCATGCACATCTCTTCTTTGAGTGCTCCTTCTCTTTGGCAATTTGGGAGTTCTTTGCTTCGAAGTTTCGGCCATCTCCTCCTTTTGGGCTGCCTGCTGCTTCGTCCTGGATTCTACAATTGCCTCTCCGATCTCATTCCACCACCATCCTCAAGCTTCTCCTCCAATCGGCAGTCTACCATGTTTGGAAAGAACGCAACGCTCGGATCTTCACCTCCATCTCATCCTCGGCCTCCTCTCTCCGTTTGGCAATTGATCGGACTATGCGGAATCGTCTTTTGTCTTTTCCCTCGGCTGACTTGCGCTCCCCTTCTCTTCTTCAGTTTTACTTCTCTAGATTTTCTTATCCAGTGTAA
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
RVT_1 zf-RVT

Protein Analysis

295

Amino Acids

33.92

Weight (kDa)

9.88

Isoelectric Point (pI)

55.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 109 - 193 3.2e-23 zinc-binding in reverse transcriptase
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) 296
AccBSI CCGCTC 1 cut(s) 122
AccI GTMKAC 1 cut(s) 708
AccII CGCG 1 cut(s) 162
AciI CCGC 3 cut(s) 63, 122, 799
AclWI GGATC 1 cut(s) 746
AcoI YGGCCR 1 cut(s) 602
AcuI CTGAAG 1 cut(s) 836
AfaI GTAC 1 cut(s) 407
AfiI CCNNNNNNNGG 4 cut(s) 72, 504, 617, 700
AgsI TTSAA 3 cut(s) 170, 177, 449
AjnI CCWGG 2 cut(s) 83, 638
AjuI GAANNNNNNNTTGG 2 cut(s) 172, 204
AluBI AGCT 6 cut(s) 10, 103, 173, 203, 226, 688
AluI AGCT 6 cut(s) 10, 103, 173, 203, 226, 688
Alw21I GWGCWC 1 cut(s) 560
AlwI GGATC 1 cut(s) 746
AoxI GGCC 3 cut(s) 249, 602, 762
ApeKI GCWGC 7 cut(s) 203, 223, 236, 302, 454, 622, 629
Asp700I GAANNNNTTC 1 cut(s) 351
AspLEI GCGC 1 cut(s) 837
AspS9I GGNCC 2 cut(s) 128, 250
AsuHPI GGTGA 3 cut(s) 68, 357, 736
AsuII TTCGAA 1 cut(s) 593
AvaII GGWCC 1 cut(s) 128
BauI CACGAG 2 cut(s) 333, 460
Bbv12I GWGCWC 1 cut(s) 560
BbvI GCAGC 7 cut(s) 190, 223, 235, 289, 441, 609, 616
BccI CCATC 4 cut(s) 241, 613, 686, 758
BcgI CGANNNNNNTGC 2 cut(s) 140, 174
BciT130I CCWGG 2 cut(s) 85, 640
BfaI CTAG 1 cut(s) 867
BfmI CTRYAG 1 cut(s) 303
BfuAI ACCTGC 1 cut(s) 296
BglII AGATCT 1 cut(s) 209
BisI GCNGC 8 cut(s) 123, 204, 224, 237, 303, 455, 623, 630
BlsI GCNGC 8 cut(s) 124, 205, 225, 238, 304, 456, 624, 631
Bme1390I CCNGG 2 cut(s) 85, 640
Bme18I GGWCC 1 cut(s) 128
BmgT120I GGNCC 2 cut(s) 128, 250
BmiI GGNNCC 1 cut(s) 252
BmrFI CCNGG 2 cut(s) 85, 640
BmsI GCATC 2 cut(s) 70, 145
Bpu14I TTCGAA 1 cut(s) 593
BpuEI CTTGAG 1 cut(s) 668
BsaJI CCNNGG 4 cut(s) 377, 413, 759, 822
BsaXI ACNNNNNCTCC 2 cut(s) 821, 851
Bsc4I CCNNNNNNNGG 4 cut(s) 72, 504, 617, 700
Bse1I ACTGG 1 cut(s) 881
BseBI CCWGG 2 cut(s) 85, 640
BseDI CCNNGG 4 cut(s) 377, 413, 759, 822
BseGI GGATG 5 cut(s) 408, 441, 532, 678, 755
BseLI CCNNNNNNNGG 4 cut(s) 72, 504, 617, 700
BseMII CTCAG 1 cut(s) 464
BseNI ACTGG 1 cut(s) 881
BseRI GAGGAG 4 cut(s) 490, 600, 683, 757
BseXI GCAGC 7 cut(s) 190, 223, 235, 289, 441, 609, 616
Bsh1236I CGCG 1 cut(s) 162
BshFI GGCC 3 cut(s) 251, 604, 764
BsiHKAI GWGCWC 1 cut(s) 560
BslFI GGGAC 1 cut(s) 288
BslI CCNNNNNNNGG 4 cut(s) 72, 504, 617, 700
BsmFI GGGAC 1 cut(s) 288
BsnI GGCC 3 cut(s) 251, 604, 764
Bsp119I TTCGAA 1 cut(s) 593
Bsp1286I GDGCHC 1 cut(s) 560
Bsp143I GATC 5 cut(s) 209, 466, 662, 738, 787
Bsp19I CCATGG 1 cut(s) 377
BspACI CCGC 3 cut(s) 63, 122, 799
BspANI GGCC 3 cut(s) 251, 604, 764
BspCNI CTCAG 1 cut(s) 465
BspFNI CGCG 1 cut(s) 162
BspHI TCATGA 2 cut(s) 33, 262
BspLI GGNNCC 1 cut(s) 252
BspMAI CTGCAG 1 cut(s) 307
BspMI ACCTGC 1 cut(s) 296
BspPI GGATC 1 cut(s) 746
BspT104I TTCGAA 1 cut(s) 593
BsrBI CCGCTC 1 cut(s) 122
BsrI ACTGG 1 cut(s) 881
BssECI CCNNGG 4 cut(s) 377, 413, 759, 822
BssMI GATC 5 cut(s) 209, 466, 662, 738, 787
BssSI CACGAG 2 cut(s) 333, 460
BssT1I CCWWGG 1 cut(s) 377
Bst2BI CACGAG 2 cut(s) 333, 460
Bst2UI CCWGG 2 cut(s) 85, 640
Bst4CI ACNGT 1 cut(s) 373
Bst6I CTCTTC 3 cut(s) 334, 551, 852
BstBI TTCGAA 1 cut(s) 593
BstC8I GCNNGC 3 cut(s) 160, 201, 627
BstDEI CTNAG 1 cut(s) 473
BstDSI CCRYGG 1 cut(s) 377
BstF5I GGATG 5 cut(s) 408, 441, 532, 678, 755
BstFNI CGCG 1 cut(s) 162
BstHHI GCGC 1 cut(s) 837
BstKTI GATC 5 cut(s) 212, 469, 665, 741, 790
BstMBI GATC 5 cut(s) 209, 466, 662, 738, 787
BstNI CCWGG 2 cut(s) 85, 640
BstSCI CCNGG 2 cut(s) 83, 638
BstSFI CTRYAG 1 cut(s) 303
BstUI CGCG 1 cut(s) 162
BstV1I GCAGC 7 cut(s) 190, 223, 235, 289, 441, 609, 616
BstX2I RGATCY 2 cut(s) 209, 738
BstYI RGATCY 2 cut(s) 209, 738
BsuRI GGCC 3 cut(s) 251, 604, 764
BtgI CCRYGG 1 cut(s) 377
BtsCI GGATG 5 cut(s) 408, 441, 532, 678, 755
BtsIMutI CAGTG 2 cut(s) 369, 888
BveI ACCTGC 1 cut(s) 296
Cac8I GCNNGC 3 cut(s) 160, 201, 627
CciI TCATGA 2 cut(s) 33, 262
CfoI GCGC 1 cut(s) 837
Cfr13I GGNCC 2 cut(s) 128, 250
Csp6I GTAC 1 cut(s) 406
CviAII CATG 6 cut(s) 34, 263, 378, 487, 536, 713
CviQI GTAC 1 cut(s) 406
DdeI CTNAG 1 cut(s) 473
DpnI GATC 5 cut(s) 211, 468, 664, 740, 789
DpnII GATC 5 cut(s) 209, 466, 662, 738, 787
DraI TTTAAA 1 cut(s) 400
EaeI YGGCCR 1 cut(s) 602
Eam1104I CTCTTC 3 cut(s) 334, 551, 852
EarI CTCTTC 3 cut(s) 334, 551, 852
EciI GGCGGA 1 cut(s) 52
Eco130I CCWWGG 1 cut(s) 377
Eco47I GGWCC 1 cut(s) 128
Eco57I CTGAAG 1 cut(s) 836
EcoRII CCWGG 2 cut(s) 83, 638
EcoT14I CCWWGG 1 cut(s) 377
ErhI CCWWGG 1 cut(s) 377
FaeI CATG 6 cut(s) 37, 266, 381, 490, 539, 716
FaqI GGGAC 1 cut(s) 288
FatI CATG 6 cut(s) 33, 262, 377, 486, 535, 712
FblI GTMKAC 1 cut(s) 708
Fnu4HI GCNGC 8 cut(s) 123, 204, 224, 237, 303, 455, 623, 630
FokI GGATG 5 cut(s) 395, 448, 539, 665, 742
Fsp4HI GCNGC 8 cut(s) 123, 204, 224, 237, 303, 455, 623, 630
FspBI CTAG 1 cut(s) 867
GlaI GCGC 1 cut(s) 836
GluI GCNGC 8 cut(s) 123, 204, 224, 237, 303, 455, 623, 630
HaeIII GGCC 3 cut(s) 251, 604, 764
HhaI GCGC 1 cut(s) 837
Hin1II CATG 6 cut(s) 37, 266, 381, 490, 539, 716
Hin6I GCGC 1 cut(s) 835
HinP1I GCGC 1 cut(s) 835
HindIII AAGCTT 2 cut(s) 171, 686
HinfI GANTC 6 cut(s) 4, 59, 281, 352, 643, 802
HphI GGTGA 3 cut(s) 68, 357, 736
Hpy166II GTNNAC 2 cut(s) 361, 709
Hpy188I TCNGA 4 cut(s) 214, 662, 738, 792
Hpy188III TCNNGA 6 cut(s) 34, 177, 263, 335, 446, 867
Hpy8I GTNNAC 2 cut(s) 361, 709
HpyAV CCTTC 4 cut(s) 27, 330, 571, 852
HpyCH4III ACNGT 1 cut(s) 373
HpyCH4V TGCA 3 cut(s) 206, 305, 539
HpyF3I CTNAG 1 cut(s) 473
Hsp92II CATG 6 cut(s) 37, 266, 381, 490, 539, 716
HspAI GCGC 1 cut(s) 835
Kzo9I GATC 5 cut(s) 209, 466, 662, 738, 787
LmnI GCTCC 3 cut(s) 119, 563, 842
Lsp1109I GCAGC 7 cut(s) 190, 223, 235, 289, 441, 609, 616
LweI GCATC 2 cut(s) 70, 145
MaeI CTAG 1 cut(s) 867
MaeIII GTNAC 2 cut(s) 296, 335
MalI GATC 5 cut(s) 211, 468, 664, 740, 789
MbiI CCGCTC 1 cut(s) 122
MboI GATC 5 cut(s) 209, 466, 662, 738, 787
MboII GAAGA 5 cut(s) 321, 538, 733, 839, 842
MfeI CAATTG 2 cut(s) 650, 783
MflI RGATCY 2 cut(s) 209, 738
MhlI GDGCHC 1 cut(s) 560
MluCI AATT 4 cut(s) 217, 573, 650, 783
MlyI GAGTC 1 cut(s) 275
MroXI GAANNNNTTC 1 cut(s) 351
MseI TTAA 2 cut(s) 107, 399
MslI CAYNNNNRTG 1 cut(s) 434
MspA1I CMGCKG 2 cut(s) 10, 203
MspR9I CCNGG 2 cut(s) 85, 640
MunI CAATTG 2 cut(s) 650, 783
MvaI CCWGG 2 cut(s) 85, 640
MvnI CGCG 1 cut(s) 162
NcoI CCATGG 1 cut(s) 377
NdeII GATC 5 cut(s) 209, 466, 662, 738, 787
NlaIII CATG 6 cut(s) 37, 266, 381, 490, 539, 716
NlaIV GGNNCC 1 cut(s) 252
NmeAIII GCCGAG 2 cut(s) 740, 803
NmuCI GTSAC 1 cut(s) 335
NspV TTCGAA 1 cut(s) 593
PagI TCATGA 2 cut(s) 33, 262
PcsI WCGNNNNNNNCGW 1 cut(s) 139
PdmI GAANNNNTTC 1 cut(s) 351
PfeI GAWTC 5 cut(s) 4, 59, 352, 643, 802
PfoI TCCNGGA 1 cut(s) 638
PkrI GCNGC 8 cut(s) 124, 205, 225, 238, 304, 456, 624, 631
PleI GAGTC 1 cut(s) 275
PpsI GAGTC 1 cut(s) 275
Psp6I CCWGG 2 cut(s) 83, 638
PspGI CCWGG 2 cut(s) 83, 638
PspN4I GGNNCC 1 cut(s) 252
PspPI GGNCC 2 cut(s) 128, 250
PstI CTGCAG 1 cut(s) 307
PsuI RGATCY 2 cut(s) 209, 738
PvuII CAGCTG 2 cut(s) 10, 203
RsaI GTAC 1 cut(s) 407
RsaNI GTAC 1 cut(s) 406
RseI CAYNNNNRTG 1 cut(s) 434
SaqAI TTAA 2 cut(s) 107, 399
SatI GCNGC 8 cut(s) 123, 204, 224, 237, 303, 455, 623, 630
Sau3AI GATC 5 cut(s) 209, 466, 662, 738, 787
Sau96I GGNCC 2 cut(s) 128, 250
SchI GAGTC 1 cut(s) 275
ScrFI CCNGG 2 cut(s) 85, 640
SduI GDGCHC 1 cut(s) 560
SfaNI GCATC 2 cut(s) 70, 145
SfcI CTRYAG 1 cut(s) 303
SfuI TTCGAA 1 cut(s) 593
SinI GGWCC 1 cut(s) 128
SmiMI CAYNNNNRTG 1 cut(s) 434
SmlI CTYRAG 1 cut(s) 683
SmoI CTYRAG 1 cut(s) 683
Sse9I AATT 4 cut(s) 217, 573, 650, 783
SsiI CCGC 3 cut(s) 63, 122, 799
SspI AATATT 1 cut(s) 493
SspMI CTAG 1 cut(s) 867
StyD4I CCNGG 2 cut(s) 83, 638
StyI CCWWGG 1 cut(s) 377
TaaI ACNGT 1 cut(s) 373
TaqI TCGA 3 cut(s) 133, 469, 593
TasI AATT 4 cut(s) 217, 573, 650, 783
TatI WGTACW 1 cut(s) 405
TauI GCSGC 1 cut(s) 125
TfiI GAWTC 5 cut(s) 4, 59, 352, 643, 802
Tru1I TTAA 2 cut(s) 107, 399
Tru9I TTAA 2 cut(s) 107, 399
TscAI CASTG 2 cut(s) 376, 888
TseFI GTSAC 1 cut(s) 335
TseI GCWGC 7 cut(s) 203, 223, 236, 302, 454, 622, 629
Tsp45I GTSAC 1 cut(s) 335
TspDTI ATGAA 4 cut(s) 22, 279, 503, 543
TspGWI ACGGA 2 cut(s) 104, 764
TspRI CASTG 2 cut(s) 376, 888
VpaK11BI GGWCC 1 cut(s) 128
XbaI TCTAGA 1 cut(s) 866
XmiI GTMKAC 1 cut(s) 708
XmnI GAANNNNTTC 1 cut(s) 351
XspI CTAG 1 cut(s) 867
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.