AT5G65005

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0000204
Physical Location & Seq
Forward (+)
25967824 .. 25968638
815 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G65005.1

Sequence Viewer

Length: 792 bp
ATGATATGGAGAGCTGCAGGCTTTCAAACTTCCCAATTATGTGACAATGGAATACCACCGGAAGAGAAGTTGCGTATCATCTTTCAAATGCATAATGATTCAAGGGTGGATCGAGTTACAAGATTTATGCCCTTTTGGTTAATGTGGAGAATATGGAAGAGCGGAAACGACCTAGTCTTTAACCACACGCGAACAAAATTCCAAACTACAGTGGAGATGGCTCTCAATGACACCAAGGAATGGTTGGACAATACAATGACAAACGAGCAGCAAAATGGGAACAGGAATGCAGATCCGTCTCGTAATACCAAGTGGTCGCCGCCGGGAAGAGACAAATTAAAATGCAACTATGATGCATCGCACCATGAAAGAAACACAGTTTCAGGACTTGGTTGGATCCTTCGGAACTCTCAAGGTACTGTGATCGAGTGTGGTATGGGGAAATTTCAAGGTCGTATGACGACGGAGGAGGCAGAGTGTTCAACACTTATTTGGGCTATACAAGCTTCCTATGGCTTCGGGCATAAGAAGGTTATTTTTGAGGGAGATAACCAAACCATCACCCGAATGATAAACACAAAGTCATCTAATCCAAGGCTACAACACTTTCTCGATACCATCCAAAGTTGGATACCAAGTTTTGAATCGATAGAATTCTCTTTCAAACATCGAGAACAGAACGGATGTGCGGATTTCTTAGCCAAACAAGCCATCAAAGAGAATACCCAATGGTCTCTGTTTCATTCTTGTCCTTATTTTCTGAGTCCATATGTAAACAACGATTACTCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04144 map04144
Pfam Domains
Protein Families
Exo_endo_phos_2 RVT_3 zf-RVT

Protein Analysis

263

Amino Acids

30.67

Weight (kDa)

8.2

Isoelectric Point (pI)

39.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 116 - 237 1e-32 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0000204)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04625 AT1G27220 AT1G27250 AT1G27870 AT1G47497 AT1G47497 AT1G50160 AT1G52990 AT1G52990 AT1G77815 AT2G02650 AT2G04420 AT2G11205 AT2G13980 AT2G33160 AT2G46460 AT3G09510 AT3G23320 AT3G25270 AT3G32130 AT4G03292 AT4G09775 AT5G26617 AT5G44470 AT5G52115 AT5G65005
fragaria_vesca FvH4_1g25222 FvH4_1g28481 FvH4_3g03751 FvH4_3g24081 FvH4_3g35341 FvH4_5g31961 FvH4_6g20891 FvH4_6g23253 FvH4_6g31361 FvH4_6g53051
malus_domestica MD14G1209300.v1.1
prunus_persica Prupe.1G168800_v2.0.a1 Prupe.1G509200_v2.0.a1 Prupe.2G042000_v2.0.a1 Prupe.2G133200_v2.0.a1 Prupe.2G140300_v2.0.a1 Prupe.3G103800_v2.0.a1 Prupe.4G217300_v2.0.a1 Prupe.4G245300_v2.0.a1 Prupe.5G002600_v2.0.a1 Prupe.5G134600_v2.0.a1 Prupe.6G185900_v2.0.a1 Prupe.6G308300_v2.0.a1 Prupe.7G010700_v2.0.a1 Prupe.8G078100_v2.0.a1 Prupe.8G128400_v2.0.a1
pyrus_communis pycom01g14230 pycom03g12410 pycom08g15160 pycom08g21670 pycom10g25730 pycom10g25740 pycom11g15380 pycom14g10440 pycom14g11510 pycom15g31840 pycom16g02370
rosa_chinensis RchiOBHm_Chr4g0440421 RchiOBHm_Chr5g0005841 RchiOBHm_Chr6g0289481 RchiOBHm_Chr7g0218671
rosa_laevigata RLG00000011653 RLG00000031330 RLG00000031331 RLG00000032722
rosa_multiflora Rmu_co8243061.1_g000001 Rmu_sc0000470.1_g000036 Rmu_sc0000581.1_g000008 Rmu_sc0000666.1_g000017 Rmu_sc0000905.1_g000019 Rmu_sc0000976.1_g000013 Rmu_sc0001066.1_g000001 Rmu_sc0001103.1_g000007 Rmu_sc0001180.1_g000001 Rmu_sc0001643.1_g000034 Rmu_sc0001759.1_g000007 Rmu_sc0001850.1_g000051 Rmu_sc0001910.1_g000008 Rmu_sc0001981.1_g000015 Rmu_sc0001981.1_g000029 Rmu_sc0002209.1_g000015 Rmu_sc0002406.1_g000010 Rmu_sc0003743.1_g000002 Rmu_sc0006416.1_g000026 Rmu_sc0006513.1_g000006 Rmu_sc0006577.1_g000010 Rmu_sc0014652.1_g000001 Rmu_sc0016202.1_g000003
rosa_roxburghii Rroxscaffold_1G00001530 Rroxscaffold_1G00047250 Rroxscaffold_5G00340720 Rroxscaffold_7G00171110 Rroxscaffold_7G00177650
rosa_rugosa Rorug01G0044800 Rorug01G0204500 Rorug01G0224700 Rorug01G0267800 Rorug02G0038400 Rorug02G0107100 Rorug02G0180700 Rorug02G0363800 Rorug02G0374300 Rorug02G0491400 Rorug02G0491400 Rorug03G0104200 Rorug03G0109800 Rorug03G0334200 Rorug04G0007100 Rorug04G0061400.1 Rorug04G0080000 Rorug05G0152200 Rorug05G0188800 Rorug05G0234800 Rorug05G0239900 Rorug05G0284800 Rorug06G0044700 Rorug06G0205700 Rorug06G0266900 Rorug06G0440700 Rorug07G0037400 Rorug07G0192100 Rorug07G0196900 Rorug07G0237500 Rorug07G0336400.1 RorugPtG0002500.1
rosa_samantha Rh1BG014800 Rh1CG017500 Rh2CG332500 Rh3BG371800 Rh5AG046000 Rh5AG046100 Rh5BG044700 Rh5BG044800 Rh5BG248000 Rh5CG053600 Rh5CG053700 Rh5DG044500 Rh5DG044600 Rh6AG052800 Rh6AG315400 Rh6DG021400 Rh7AG409500
rosa_wichuraiana Rw3G007750 Rw3G018750 Rw4G008820 Rw5G004630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 240
AccBSI CCGCTC 1 cut(s) 162
AccII CGCG 1 cut(s) 190
AciI CCGC 3 cut(s) 162, 320, 689
AclWI GGATC 4 cut(s) 117, 287, 391, 404
AcsI RAATTY 3 cut(s) 197, 443, 653
AfaI GTAC 1 cut(s) 418
AfiI CCNNNNNNNGG 1 cut(s) 240
AgsI TTSAA 7 cut(s) 26, 86, 102, 449, 483, 644, 664
AluBI AGCT 2 cut(s) 14, 506
AluI AGCT 2 cut(s) 14, 506
Alw26I GTCTC 3 cut(s) 303, 324, 738
AlwI GGATC 4 cut(s) 117, 287, 391, 404
ApeKI GCWGC 2 cut(s) 14, 268
ApoI RAATTY 3 cut(s) 197, 443, 653
AsuC2I CCSGG 1 cut(s) 324
AsuHPI GGTGA 1 cut(s) 553
BamHI GGATCC 1 cut(s) 396
BbvI GCAGC 1 cut(s) 280
BccI CCATC 4 cut(s) 211, 566, 626, 719
BciVI GTATCC 1 cut(s) 624
BcnI CCSGG 1 cut(s) 324
BcoDI GTCTC 3 cut(s) 303, 324, 738
BfaI CTAG 1 cut(s) 173
BfmI CTRYAG 2 cut(s) 15, 207
BfuI GTATCC 1 cut(s) 624
BisI GCNGC 3 cut(s) 15, 269, 320
BlsI GCNGC 3 cut(s) 16, 270, 321
Bme1390I CCNGG 1 cut(s) 324
BmiI GGNNCC 1 cut(s) 398
BmrFI CCNGG 1 cut(s) 324
BmsI GCATC 2 cut(s) 343, 365
BpuEI CTTGAG 1 cut(s) 396
BpuMI CCSGG 1 cut(s) 324
Bsa29I ATCGAT 1 cut(s) 647
BsaI GGTCTC 1 cut(s) 738
BsaJI CCNNGG 2 cut(s) 234, 593
BsaWI WCCGGW 1 cut(s) 58
BsaXI ACNNNNNCTCC 2 cut(s) 461, 491
Bsc4I CCNNNNNNNGG 1 cut(s) 240
BseCI ATCGAT 1 cut(s) 647
BseDI CCNNGG 2 cut(s) 234, 593
BseGI GGATG 2 cut(s) 618, 689
BseLI CCNNNNNNNGG 1 cut(s) 240
BseMII CTCAG 1 cut(s) 752
BseRI GAGGAG 1 cut(s) 482
BseXI GCAGC 1 cut(s) 280
Bsh1236I CGCG 1 cut(s) 190
BshVI ATCGAT 1 cut(s) 647
BsiSI CCGG 2 cut(s) 59, 323
BslI CCNNNNNNNGG 1 cut(s) 240
BsmAI GTCTC 3 cut(s) 303, 324, 738
BsmBI CGTCTC 1 cut(s) 303
BsmI GAATGC 1 cut(s) 292
Bso31I GGTCTC 1 cut(s) 738
Bsp143I GATC 4 cut(s) 109, 292, 396, 423
BspACI CCGC 3 cut(s) 162, 320, 689
BspCNI CTCAG 1 cut(s) 753
BspDI ATCGAT 1 cut(s) 647
BspFNI CGCG 1 cut(s) 190
BspLI GGNNCC 1 cut(s) 398
BspMAI CTGCAG 1 cut(s) 19
BspPI GGATC 4 cut(s) 117, 287, 391, 404
BspQI GCTCTTC 1 cut(s) 152
BspTNI GGTCTC 1 cut(s) 738
BsrBI CCGCTC 1 cut(s) 162
BssECI CCNNGG 2 cut(s) 234, 593
BssMI GATC 4 cut(s) 109, 292, 396, 423
BssT1I CCWWGG 2 cut(s) 234, 593
Bst4CI ACNGT 3 cut(s) 211, 379, 421
Bst6I CTCTTC 3 cut(s) 57, 152, 322
BstC8I GCNNGC 1 cut(s) 19
BstDEI CTNAG 2 cut(s) 697, 761
BstF5I GGATG 2 cut(s) 618, 689
BstFNI CGCG 1 cut(s) 190
BstKTI GATC 4 cut(s) 112, 295, 399, 426
BstMAI GTCTC 3 cut(s) 303, 324, 738
BstMBI GATC 4 cut(s) 109, 292, 396, 423
BstMWI GCNNNNNNNGC 2 cut(s) 503, 707
BstSCI CCNGG 1 cut(s) 322
BstSFI CTRYAG 2 cut(s) 15, 207
BstUI CGCG 1 cut(s) 190
BstV1I GCAGC 1 cut(s) 280
BstX2I RGATCY 2 cut(s) 292, 396
BstYI RGATCY 2 cut(s) 292, 396
Bsu15I ATCGAT 1 cut(s) 647
BsuI GTATCC 1 cut(s) 624
BsuTUI ATCGAT 1 cut(s) 647
BtgZI GCGATG 1 cut(s) 342
BtsCI GGATG 2 cut(s) 618, 689
BtsIMutI CAGTG 1 cut(s) 216
Cac8I GCNNGC 1 cut(s) 19
ClaI ATCGAT 1 cut(s) 647
Csp6I GTAC 1 cut(s) 417
CviAII CATG 1 cut(s) 365
CviJI RGCY 9 cut(s) 14, 21, 221, 497, 506, 516, 598, 701, 710
CviKI_1 RGCY 9 cut(s) 14, 21, 221, 497, 506, 516, 598, 701, 710
CviQI GTAC 1 cut(s) 417
DdeI CTNAG 2 cut(s) 697, 761
DpnI GATC 4 cut(s) 111, 294, 398, 425
DpnII GATC 4 cut(s) 109, 292, 396, 423
Eam1104I CTCTTC 3 cut(s) 57, 152, 322
EarI CTCTTC 3 cut(s) 57, 152, 322
Eco130I CCWWGG 2 cut(s) 234, 593
Eco31I GGTCTC 1 cut(s) 738
EcoRI GAATTC 1 cut(s) 653
EcoT14I CCWWGG 2 cut(s) 234, 593
EcoT22I ATGCAT 2 cut(s) 93, 358
ErhI CCWWGG 2 cut(s) 234, 593
Esp3I CGTCTC 1 cut(s) 303
FaeI CATG 1 cut(s) 368
FatI CATG 1 cut(s) 364
FauNDI CATATG 1 cut(s) 769
Fnu4HI GCNGC 3 cut(s) 15, 269, 320
FokI GGATG 2 cut(s) 605, 696
Fsp4HI GCNGC 3 cut(s) 15, 269, 320
FspBI CTAG 1 cut(s) 173
GluI GCNGC 3 cut(s) 15, 269, 320
HapII CCGG 2 cut(s) 59, 323
Hin1II CATG 1 cut(s) 368
HindIII AAGCTT 1 cut(s) 504
HinfI GANTC 3 cut(s) 98, 644, 763
HpaII CCGG 2 cut(s) 59, 323
HphI GGTGA 1 cut(s) 553
Hpy166II GTNNAC 1 cut(s) 775
Hpy188I TCNGA 2 cut(s) 405, 762
Hpy188III TCNNGA 3 cut(s) 384, 611, 671
Hpy8I GTNNAC 1 cut(s) 775
Hpy99I CGWCG 1 cut(s) 466
HpyAV CCTTC 2 cut(s) 410, 523
HpyCH4III ACNGT 3 cut(s) 211, 379, 421
HpyCH4V TGCA 5 cut(s) 17, 91, 290, 345, 356
HpyF10VI GCNNNNNNNGC 2 cut(s) 503, 707
HpyF3I CTNAG 2 cut(s) 697, 761
Hsp92II CATG 1 cut(s) 368
Kzo9I GATC 4 cut(s) 109, 292, 396, 423
LguI GCTCTTC 1 cut(s) 152
LpnPI CCDG 5 cut(s) 3, 72, 268, 336, 369
Lsp1109I GCAGC 1 cut(s) 280
LweI GCATC 2 cut(s) 343, 365
MaeI CTAG 1 cut(s) 173
MaeIII GTNAC 2 cut(s) 41, 115
MalI GATC 4 cut(s) 111, 294, 398, 425
MbiI CCGCTC 1 cut(s) 162
MboI GATC 4 cut(s) 109, 292, 396, 423
MboII GAAGA 3 cut(s) 74, 169, 339
MflI RGATCY 2 cut(s) 292, 396
MluCI AATT 5 cut(s) 35, 197, 335, 443, 653
MlyI GAGTC 1 cut(s) 772
MmeI TCCRAC 3 cut(s) 225, 374, 608
MnlI CCTC 3 cut(s) 460, 463, 535
Mph1103I ATGCAT 2 cut(s) 93, 358
MseI TTAA 4 cut(s) 140, 180, 338, 790
MslI CAYNNNNRTG 1 cut(s) 566
MspI CCGG 2 cut(s) 59, 323
MspR9I CCNGG 1 cut(s) 324
Mva1269I GAATGC 1 cut(s) 292
MvnI CGCG 1 cut(s) 190
MwoI GCNNNNNNNGC 2 cut(s) 503, 707
NciI CCSGG 1 cut(s) 324
NdeI CATATG 1 cut(s) 769
NdeII GATC 4 cut(s) 109, 292, 396, 423
NlaIII CATG 1 cut(s) 368
NlaIV GGNNCC 1 cut(s) 398
NmuCI GTSAC 1 cut(s) 41
NsiI ATGCAT 2 cut(s) 93, 358
PciSI GCTCTTC 1 cut(s) 152
PctI GAATGC 1 cut(s) 292
PfeI GAWTC 2 cut(s) 98, 644
PflFI GACNNNGTC 1 cut(s) 173
PflMI CCANNNNNTGG 1 cut(s) 240
PkrI GCNGC 3 cut(s) 16, 270, 321
PleI GAGTC 1 cut(s) 771
PpsI GAGTC 1 cut(s) 771
PspN4I GGNNCC 1 cut(s) 398
PstI CTGCAG 1 cut(s) 19
PsuI RGATCY 2 cut(s) 292, 396
PsyI GACNNNGTC 1 cut(s) 173
RsaI GTAC 1 cut(s) 418
RsaNI GTAC 1 cut(s) 417
RseI CAYNNNNRTG 1 cut(s) 566
SapI GCTCTTC 1 cut(s) 152
SaqAI TTAA 4 cut(s) 140, 180, 338, 790
SatI GCNGC 3 cut(s) 15, 269, 320
Sau3AI GATC 4 cut(s) 109, 292, 396, 423
SchI GAGTC 1 cut(s) 772
ScrFI CCNGG 1 cut(s) 324
SetI ASST 6 cut(s) 16, 174, 418, 454, 508, 534
SfaNI GCATC 2 cut(s) 343, 365
SfcI CTRYAG 2 cut(s) 15, 207
SmiMI CAYNNNNRTG 1 cut(s) 566
SmlI CTYRAG 1 cut(s) 411
SmoI CTYRAG 1 cut(s) 411
Sse9I AATT 5 cut(s) 35, 197, 335, 443, 653
SsiI CCGC 3 cut(s) 162, 320, 689
SspMI CTAG 1 cut(s) 173
StyD4I CCNGG 1 cut(s) 322
StyI CCWWGG 2 cut(s) 234, 593
TaaI ACNGT 3 cut(s) 211, 379, 421
TaqI TCGA 5 cut(s) 112, 426, 612, 647, 670
TasI AATT 5 cut(s) 35, 197, 335, 443, 653
TauI GCSGC 1 cut(s) 322
TfiI GAWTC 2 cut(s) 98, 644
Tru1I TTAA 4 cut(s) 140, 180, 338, 790
Tru9I TTAA 4 cut(s) 140, 180, 338, 790
TscAI CASTG 1 cut(s) 216
TseFI GTSAC 1 cut(s) 41
TseI GCWGC 2 cut(s) 14, 268
Tsp45I GTSAC 1 cut(s) 41
TspDTI ATGAA 2 cut(s) 381, 731
TspGWI ACGGA 3 cut(s) 285, 479, 696
TspRI CASTG 1 cut(s) 216
Tth111I GACNNNGTC 1 cut(s) 173
Van91I CCANNNNNTGG 1 cut(s) 240
XapI RAATTY 3 cut(s) 197, 443, 653
XcmI CCANNNNNNNNNTGG 1 cut(s) 241
XspI CTAG 1 cut(s) 173
Zsp2I ATGCAT 2 cut(s) 93, 358
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.