AT5G51080

Contains the following InterPro domains Ribosomal protein L9 RNase H1, N-terminal (InterPro IPR009027), Polynucleotidyl transferase, ribonuclease H fold (InterPro IPR012337), Ribonuclease H (InterPro IPR002156)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0020834
Physical Location & Seq
Reverse (-)
20768795 .. 20771085
2291 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G51080.3

Sequence Viewer

Length: 969 bp
ATGAACCGCTTCTCTCGTGCTCGTTCATACATTTCCTTGGTGCTGTTTAGGAAGTCCAGCTATGTCACTTCCCACATTCCATGGAATCAGTGCTTCTATACATCTTTAAAATCTAGTTTAAAGCCTGCAAGTGTGAGTGTATCTAGTGTTCATTGCTATTCCTCAAGATCAAAGACTGCTAAATCAAAGATGTCAAAAAGCTCTGTTTCTGTTTCGGATTCGGATAAAGAGAAAGACGCCTTTTTTGTTGTTCGAAAGGGTGACATTGTTGGAATTTATAAGGATTTGATCGATTGTCAAGCTCAAGTTGGATCTTCGGTTTATGATCCTCCAGTTAGCGTTTATAAGGGATACTCGTTGCTCAAAGACACCGAGGAGTGTCTTTCTACTGTTGGTTTGAAGAAACCACTCTATGTTTTTAGAGCTTTAGACTTAAAAGAAGATATGTTTGGAGCTCTTACACCTTGTCTCTTCCAGGATCAACTTCCTTCAGCTTCCATGTCAGTTGAAAAGCTTGCTGAGCTAGAGCCATCTGCTGATACCTCATATGAAACTTGCATTATTGAGTTTGACGGTGCATCAAAAGGAAATCCCGGTCTCTCTGGCGCTGCAGCTGTACTGAAAACTGAGGACGGAAGCTTGATTTTTAAAATGCGTCAAGGTTTAGGAATTGCCACAAATAATGCAGCTGAATATCATGGATTAATCCTAGGATTGAAGCATGCTATCGAGAAAGGTTACACGAAAATTAAAGTGAAAACTGACTCCAAGCTAGTTTGTATGCAGATGAAAGGTCAATGGAAGGTAAACCACGAGGTACTCTCGAAGCTCCACAAGGAAGCAAAACAACTTAGCGACAAATGTCTCTCTTTTGAGATCAGTCATGTACTTAGGAGTTTAAACTCTGATGCGGATGAACAGGCAAACATGGCTGCTCGTCTTTCTGAAGGAGAAGTTGAAGTGGCTTAA
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
Cauli_VI DUF393 RVT_3

Protein Analysis

322

Amino Acids

35.41

Weight (kDa)

8.61

Isoelectric Point (pI)

33.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 127 - 248 1.2e-23 Reverse transcriptase-like
RNase_H PF00075 127 - 220 5.3e-10 RNase H
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0020834)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G24090 AT5G51080 AT5G51080 AT5G51080
prunus_persica Prupe.1G259700_v2.0.a1

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 279, 345
AciI CCGC 2 cut(s) 7, 911
AclWI GGATC 3 cut(s) 319, 320, 486
AcsI RAATTY 1 cut(s) 273
AcuI CTGAAG 2 cut(s) 474, 966
AcyI GRCGYC 1 cut(s) 237
AfaI GTAC 3 cut(s) 618, 819, 888
AgsI TTSAA 4 cut(s) 400, 509, 718, 959
AjnI CCWGG 1 cut(s) 474
AjuI GAANNNNNNNTTGG 2 cut(s) 432, 464
Alw21I GWGCWC 2 cut(s) 22, 457
Alw26I GTCTC 3 cut(s) 473, 602, 869
AlwI GGATC 3 cut(s) 319, 320, 486
ApeKI GCWGC 4 cut(s) 608, 611, 686, 932
ApoI RAATTY 1 cut(s) 273
ArsI GACNNNNNNTTYG 2 cut(s) 227, 259
AseI ATTAAT 1 cut(s) 704
Asp700I GAANNNNTTC 1 cut(s) 8
AspA2I CCTAGG 1 cut(s) 709
AspLEI GCGC 1 cut(s) 608
AsuC2I CCSGG 1 cut(s) 594
AsuHPI GGTGA 1 cut(s) 272
AsuII TTCGAA 1 cut(s) 253
AvrII CCTAGG 1 cut(s) 709
BanII GRGCYC 1 cut(s) 457
BauI CACGAG 2 cut(s) 15, 812
Bbv12I GWGCWC 2 cut(s) 22, 457
BbvI GCAGC 4 cut(s) 595, 623, 698, 919
BccI CCATC 1 cut(s) 538
BciT130I CCWGG 1 cut(s) 476
BciVI GTATCC 1 cut(s) 344
BcnI CCSGG 1 cut(s) 594
BcoDI GTCTC 3 cut(s) 473, 602, 869
BfaI CTAG 5 cut(s) 114, 144, 524, 710, 773
BfmI CTRYAG 1 cut(s) 609
BfoI RGCGCY 1 cut(s) 609
BfuI GTATCC 1 cut(s) 344
BisI GCNGC 4 cut(s) 609, 612, 687, 933
BlnI CCTAGG 1 cut(s) 709
BlpI GCTNAGC 1 cut(s) 519
BlsI GCNGC 4 cut(s) 610, 613, 688, 934
Bme1390I CCNGG 2 cut(s) 476, 594
BmrFI CCNGG 2 cut(s) 476, 594
BmsI GCATC 2 cut(s) 587, 898
BoxI GACNNNNGTC 1 cut(s) 861
BplI GAGNNNNNCTC 2 cut(s) 806, 838
BpmI CTGGAG 1 cut(s) 315
Bpu1102I GCTNAGC 1 cut(s) 519
Bpu14I TTCGAA 1 cut(s) 253
BpuEI CTTGAG 2 cut(s) 148, 288
BpuMI CCSGG 1 cut(s) 594
Bsa29I ATCGAT 1 cut(s) 291
BsaHI GRCGYC 1 cut(s) 237
BsaI GGTCTC 1 cut(s) 602
BsaJI CCNNGG 4 cut(s) 36, 80, 372, 709
Bse1I ACTGG 1 cut(s) 332
Bse3DI GCAATG 1 cut(s) 151
BseBI CCWGG 1 cut(s) 476
BseCI ATCGAT 1 cut(s) 291
BseDI CCNNGG 4 cut(s) 36, 80, 372, 709
BseGI GGATG 1 cut(s) 919
BseMI GCAATG 1 cut(s) 151
BseMII CTCAG 2 cut(s) 510, 618
BseNI ACTGG 1 cut(s) 332
BseRI GAGGAG 1 cut(s) 389
BseXI GCAGC 4 cut(s) 595, 623, 698, 919
BshVI ATCGAT 1 cut(s) 291
BsiHKAI GWGCWC 2 cut(s) 22, 457
BsiSI CCGG 1 cut(s) 594
BsmAI GTCTC 3 cut(s) 473, 602, 869
Bso31I GGTCTC 1 cut(s) 602
Bsp119I TTCGAA 1 cut(s) 253
Bsp1286I GDGCHC 2 cut(s) 22, 457
Bsp143I GATC 6 cut(s) 167, 288, 311, 325, 478, 876
Bsp1720I GCTNAGC 1 cut(s) 519
Bsp19I CCATGG 1 cut(s) 80
BspACI CCGC 2 cut(s) 7, 911
BspCNI CTCAG 2 cut(s) 511, 619
BspDI ATCGAT 1 cut(s) 291
BspMAI CTGCAG 1 cut(s) 613
BspPI GGATC 3 cut(s) 319, 320, 486
BspT104I TTCGAA 1 cut(s) 253
BspTNI GGTCTC 1 cut(s) 602
BsrDI GCAATG 1 cut(s) 151
BsrI ACTGG 1 cut(s) 332
BssECI CCNNGG 4 cut(s) 36, 80, 372, 709
BssMI GATC 6 cut(s) 167, 288, 311, 325, 478, 876
BssNI GRCGYC 1 cut(s) 237
BssSI CACGAG 2 cut(s) 15, 812
BssT1I CCWWGG 3 cut(s) 36, 80, 709
Bst2BI CACGAG 2 cut(s) 15, 812
Bst2UI CCWGG 1 cut(s) 476
Bst4CI ACNGT 2 cut(s) 391, 575
Bst6I CTCTTC 1 cut(s) 476
BstACI GRCGYC 1 cut(s) 237
BstBI TTCGAA 1 cut(s) 253
BstC8I GCNNGC 3 cut(s) 126, 516, 723
BstDEI CTNAG 4 cut(s) 519, 627, 851, 890
BstDSI CCRYGG 1 cut(s) 80
BstF5I GGATG 1 cut(s) 919
BstH2I RGCGCY 1 cut(s) 609
BstHHI GCGC 1 cut(s) 608
BstKTI GATC 6 cut(s) 170, 291, 314, 328, 481, 879
BstMAI GTCTC 3 cut(s) 473, 602, 869
BstMBI GATC 6 cut(s) 167, 288, 311, 325, 478, 876
BstMWI GCNNNNNNNGC 2 cut(s) 520, 929
BstNI CCWGG 1 cut(s) 476
BstNSI RCATGY 1 cut(s) 725
BstPAI GACNNNNGTC 1 cut(s) 861
BstSCI CCNGG 2 cut(s) 474, 592
BstSFI CTRYAG 1 cut(s) 609
BstV1I GCAGC 4 cut(s) 595, 623, 698, 919
BstX2I RGATCY 1 cut(s) 311
BstYI RGATCY 1 cut(s) 311
Bsu15I ATCGAT 1 cut(s) 291
BsuI GTATCC 1 cut(s) 344
BsuTUI ATCGAT 1 cut(s) 291
BtgI CCRYGG 1 cut(s) 80
BtsCI GGATG 1 cut(s) 919
BtsIMutI CAGTG 1 cut(s) 95
Cac8I GCNNGC 3 cut(s) 126, 516, 723
CfoI GCGC 1 cut(s) 608
ClaI ATCGAT 1 cut(s) 291
CseI GACGC 2 cut(s) 245, 644
Csp6I GTAC 3 cut(s) 617, 818, 887
CviAII CATG 6 cut(s) 81, 499, 698, 722, 884, 928
CviQI GTAC 3 cut(s) 617, 818, 887
DdeI CTNAG 4 cut(s) 519, 627, 851, 890
DpnI GATC 6 cut(s) 169, 290, 313, 327, 480, 878
DpnII GATC 6 cut(s) 167, 288, 311, 325, 478, 876
DraI TTTAAA 4 cut(s) 108, 120, 649, 900
Eam1104I CTCTTC 1 cut(s) 476
EarI CTCTTC 1 cut(s) 476
Ecl136II GAGCTC 1 cut(s) 455
Eco130I CCWWGG 3 cut(s) 36, 80, 709
Eco24I GRGCYC 1 cut(s) 457
Eco31I GGTCTC 1 cut(s) 602
Eco53kI GAGCTC 1 cut(s) 455
Eco57I CTGAAG 2 cut(s) 474, 966
EcoICRI GAGCTC 1 cut(s) 455
EcoRII CCWGG 1 cut(s) 474
EcoT14I CCWWGG 3 cut(s) 36, 80, 709
EcoT38I GRGCYC 1 cut(s) 457
ErhI CCWWGG 3 cut(s) 36, 80, 709
FaeI CATG 6 cut(s) 84, 502, 701, 725, 887, 931
FatI CATG 6 cut(s) 80, 498, 697, 721, 883, 927
FauNDI CATATG 1 cut(s) 547
Fnu4HI GCNGC 4 cut(s) 609, 612, 687, 933
FokI GGATG 1 cut(s) 926
FriOI GRGCYC 1 cut(s) 457
Fsp4HI GCNGC 4 cut(s) 609, 612, 687, 933
FspBI CTAG 5 cut(s) 114, 144, 524, 710, 773
GlaI GCGC 1 cut(s) 607
GluI GCNGC 4 cut(s) 609, 612, 687, 933
GsuI CTGGAG 1 cut(s) 315
HaeII RGCGCY 1 cut(s) 609
HapII CCGG 1 cut(s) 594
HgaI GACGC 2 cut(s) 245, 644
HhaI GCGC 1 cut(s) 608
Hin1I GRCGYC 1 cut(s) 237
Hin1II CATG 6 cut(s) 84, 502, 701, 725, 887, 931
Hin6I GCGC 1 cut(s) 606
HinP1I GCGC 1 cut(s) 606
HindIII AAGCTT 2 cut(s) 512, 637
HinfI GANTC 3 cut(s) 85, 218, 764
HpaII CCGG 1 cut(s) 594
HphI GGTGA 1 cut(s) 272
Hpy166II GTNNAC 1 cut(s) 808
Hpy188I TCNGA 4 cut(s) 217, 223, 907, 946
Hpy188III TCNNGA 3 cut(s) 165, 730, 823
Hpy8I GTNNAC 1 cut(s) 808
HpyAV CCTTC 3 cut(s) 498, 796, 941
HpyCH4III ACNGT 2 cut(s) 391, 575
HpyCH4V TGCA 6 cut(s) 128, 558, 578, 611, 686, 784
HpyF10VI GCNNNNNNNGC 2 cut(s) 520, 929
HpyF3I CTNAG 4 cut(s) 519, 627, 851, 890
Hsp92I GRCGYC 1 cut(s) 237
Hsp92II CATG 6 cut(s) 84, 502, 701, 725, 887, 931
HspAI GCGC 1 cut(s) 606
Kzo9I GATC 6 cut(s) 167, 288, 311, 325, 478, 876
LmnI GCTCC 2 cut(s) 452, 834
LpnPI CCDG 8 cut(s) 70, 138, 345, 461, 488, 588, 607, 905
Lsp1109I GCAGC 4 cut(s) 595, 623, 698, 919
LweI GCATC 2 cut(s) 587, 898
MaeI CTAG 5 cut(s) 114, 144, 524, 710, 773
MaeIII GTNAC 3 cut(s) 64, 260, 737
MalI GATC 6 cut(s) 169, 290, 313, 327, 480, 878
MboI GATC 6 cut(s) 167, 288, 311, 325, 478, 876
MboII GAAGA 4 cut(s) 306, 412, 452, 463
MflI RGATCY 1 cut(s) 311
MhlI GDGCHC 2 cut(s) 22, 457
MluCI AATT 3 cut(s) 273, 669, 747
MlyI GAGTC 1 cut(s) 758
MmeI TCCRAC 2 cut(s) 250, 289
MnlI CCTC 6 cut(s) 172, 339, 367, 553, 622, 808
MroXI GAANNNNTTC 1 cut(s) 8
MseI TTAA 8 cut(s) 107, 119, 434, 648, 704, 750, 899, 967
MspA1I CMGCKG 2 cut(s) 614, 689
MspI CCGG 1 cut(s) 594
MspR9I CCNGG 2 cut(s) 476, 594
MssI GTTTAAAC 1 cut(s) 900
MvaI CCWGG 1 cut(s) 476
MwoI GCNNNNNNNGC 2 cut(s) 520, 929
NciI CCSGG 1 cut(s) 594
NcoI CCATGG 1 cut(s) 80
NdeI CATATG 1 cut(s) 547
NdeII GATC 6 cut(s) 167, 288, 311, 325, 478, 876
NlaIII CATG 6 cut(s) 84, 502, 701, 725, 887, 931
NmuCI GTSAC 2 cut(s) 64, 260
NspI RCATGY 1 cut(s) 725
NspV TTCGAA 1 cut(s) 253
PaeI GCATGC 1 cut(s) 725
PdmI GAANNNNTTC 1 cut(s) 8
PfeI GAWTC 2 cut(s) 85, 218
PfoI TCCNGGA 1 cut(s) 474
PkrI GCNGC 4 cut(s) 610, 613, 688, 934
PleI GAGTC 1 cut(s) 758
PmeI GTTTAAAC 1 cut(s) 900
PpsI GAGTC 1 cut(s) 758
PshAI GACNNNNGTC 1 cut(s) 861
PshBI ATTAAT 1 cut(s) 704
PsiI TTATAA 2 cut(s) 279, 345
Psp124BI GAGCTC 1 cut(s) 457
Psp6I CCWGG 1 cut(s) 474
PspGI CCWGG 1 cut(s) 474
PsrI GAACNNNNNNTAC 2 cut(s) 132, 164
PstI CTGCAG 1 cut(s) 613
PsuI RGATCY 1 cut(s) 311
PvuII CAGCTG 2 cut(s) 614, 689
RsaI GTAC 3 cut(s) 618, 819, 888
RsaNI GTAC 3 cut(s) 617, 818, 887
SacI GAGCTC 1 cut(s) 457
SaqAI TTAA 8 cut(s) 107, 119, 434, 648, 704, 750, 899, 967
SatI GCNGC 4 cut(s) 609, 612, 687, 933
Sau3AI GATC 6 cut(s) 167, 288, 311, 325, 478, 876
SchI GAGTC 1 cut(s) 758
ScrFI CCNGG 2 cut(s) 476, 594
SduI GDGCHC 2 cut(s) 22, 457
SfaNI GCATC 2 cut(s) 587, 898
SfcI CTRYAG 1 cut(s) 609
SfuI TTCGAA 1 cut(s) 253
SmlI CTYRAG 2 cut(s) 163, 303
SmoI CTYRAG 2 cut(s) 163, 303
SphI GCATGC 1 cut(s) 725
Sse9I AATT 3 cut(s) 273, 669, 747
SsiI CCGC 2 cut(s) 7, 911
SspMI CTAG 5 cut(s) 114, 144, 524, 710, 773
SstI GAGCTC 1 cut(s) 457
StyD4I CCNGG 2 cut(s) 474, 592
StyI CCWWGG 3 cut(s) 36, 80, 709
TaaI ACNGT 2 cut(s) 391, 575
TaqI TCGA 4 cut(s) 253, 291, 729, 824
TasI AATT 3 cut(s) 273, 669, 747
TatI WGTACW 2 cut(s) 616, 886
TfiI GAWTC 2 cut(s) 85, 218
Tru1I TTAA 8 cut(s) 107, 119, 434, 648, 704, 750, 899, 967
Tru9I TTAA 8 cut(s) 107, 119, 434, 648, 704, 750, 899, 967
TscAI CASTG 1 cut(s) 95
TseFI GTSAC 2 cut(s) 64, 260
TseI GCWGC 4 cut(s) 608, 611, 686, 932
Tsp45I GTSAC 2 cut(s) 64, 260
TspDTI ATGAA 6 cut(s) 15, 17, 140, 564, 803, 930
TspGWI ACGGA 1 cut(s) 648
TspRI CASTG 1 cut(s) 95
VspI ATTAAT 1 cut(s) 704
XapI RAATTY 1 cut(s) 273
XceI RCATGY 1 cut(s) 725
XmaJI CCTAGG 1 cut(s) 709
XmnI GAANNNNTTC 1 cut(s) 8
XspI CTAG 5 cut(s) 114, 144, 524, 710, 773
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.