AT1G52990

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0000204
Physical Location & Seq
Reverse (-)
19740400 .. 19743449
3050 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G52990.1

Sequence Viewer

Length: 942 bp
ATGGAGAAACTTAGGGTTTTGTACCGTTTGATACTGACGATAACGTGCTTGGTGTGTTACGGGTTTAATGTTGGGAAGTGTTCAGAATTCGATTTCTTGATCGAGACTTACGTGTCATCATCATCAGTGCCGTCGTGCCGAGTAAAGTGCAACTATGATGCTTCTCATCATGAGGGAGATGTAGTGTCCGGACTTGGATGGCTAATACGGAACTCCCAAGGGACGGTATTAGAGTGCGGCATGGGTAAATTCCAAGGCCGAATGACACCGGAAGAGGCTGAATGCTCGGCACTGATATGGGCAATACAAGCCACCTCCGCTTTTGGATATACAAAGGTAATATTTGAGGGAGATAACAGTAACGTTAATCGTCTGATAAACACAAAGTCAGATAACCCCAGGCTCAAACATTATCTCGATACCATAAAAAGTTGGATTCCAAGCTTTACATCAACGGAGTTCATCTTCACACACCGAGAACAAAACCAATGTGCTGATACGCTAGTTAAGAAGGCTATCAAGTCTTCTACTCAATGGTCTTTGTTTAATTGTTGTCCTCATTTCCTTTATCCCATTGTTCTGTCAATACTAGGACAGCCACATCTCAATTTTGCTGATTGGTCTGGCCTCATTGCGTGGTTACCCCTCCTCCTACGGATTACAGAGCTTAACTCTCAAACGCCTCACGTAATGGTTATGTTCACAGCCCGGTGGTGCGGACCGTGTCGTGACATGATCCCCATACTGAACAAAATGGACTCGGAATACAAGAATGAGTTCAAATTCTACACAGTAAACTTTGACACAGAGATAAGGTTCACAGAACGTTTTGACATAAGTTATCTCCCGACCACTCTCGTCTTTAAAGGCGGTGAACAAATGGCTAAAGTCACCGGAGCTGACCCAAAGAAGTTAAGGGAACTCGTCAAGAAGTACATATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04621 ko05418 map04621 map05418
Pfam Domains
Protein Families
Thioredoxin

Protein Analysis

313

Amino Acids

35.82

Weight (kDa)

8.2

Isoelectric Point (pI)

32.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 51 - 172 9.3e-35 Reverse transcriptase-like
Thioredoxin PF00085 222 - 310 5.7e-19 Thioredoxin
Thioredoxin_2 PF13098 226 - 303 3.8e-06 Thioredoxin-like domain
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)
AasI GACNNNNNNGTC 1 cut(s) 112
AccIII TCCGGA 1 cut(s) 188
AciI CCGC 4 cut(s) 237, 318, 717, 870
AclI AACGTT 2 cut(s) 363, 826
AclWI GGATC 1 cut(s) 730
AcsI RAATTY 3 cut(s) 86, 248, 782
AfaI GTAC 2 cut(s) 23, 935
AfiI CCNNNNNNNGG 1 cut(s) 223
AflIII ACRYGT 1 cut(s) 111
AgsI TTSAA 1 cut(s) 781
AjnI CCWGG 1 cut(s) 398
AluBI AGCT 3 cut(s) 444, 667, 899
AluI AGCT 3 cut(s) 444, 667, 899
Alw26I GTCTC 1 cut(s) 98
AlwI GGATC 1 cut(s) 730
Aor13HI TCCGGA 1 cut(s) 188
AoxI GGCC 2 cut(s) 256, 625
ApoI RAATTY 3 cut(s) 86, 248, 782
Asp700I GAANNNNTTC 1 cut(s) 776
AspS9I GGNCC 1 cut(s) 719
AsuC2I CCSGG 1 cut(s) 709
AsuHPI GGTGA 2 cut(s) 883, 884
AvaII GGWCC 1 cut(s) 719
BaeI ACNNNNGTAYC 2 cut(s) 489, 522
BbsI GAAGAC 1 cut(s) 516
BccI CCATC 1 cut(s) 192
BceAI ACGGC 1 cut(s) 115
BcgI CGANNNNNNTGC 2 cut(s) 129, 163
BciT130I CCWGG 1 cut(s) 400
BcnI CCSGG 1 cut(s) 709
BcoDI GTCTC 1 cut(s) 98
BfaI CTAG 2 cut(s) 503, 590
BisI GCNGC 1 cut(s) 238
BlsI GCNGC 1 cut(s) 239
Bme1390I CCNGG 2 cut(s) 400, 709
Bme18I GGWCC 1 cut(s) 719
BmgT120I GGNCC 1 cut(s) 719
BmrFI CCNGG 2 cut(s) 400, 709
BmsI GCATC 1 cut(s) 148
BpiI GAAGAC 1 cut(s) 516
BplI GAGNNNNNCTC 2 cut(s) 656, 688
BpuMI CCSGG 1 cut(s) 709
BsaAI YACGTR 2 cut(s) 112, 688
BsaJI CCNNGG 3 cut(s) 217, 253, 398
BsaWI WCCGGW 3 cut(s) 188, 268, 893
BsaXI ACNNNNNCTCC 4 cut(s) 168, 198, 633, 663
Bsc4I CCNNNNNNNGG 1 cut(s) 223
Bse3DI GCAATG 1 cut(s) 630
BseAI TCCGGA 1 cut(s) 188
BseBI CCWGG 1 cut(s) 400
BseDI CCNNGG 3 cut(s) 217, 253, 398
BseGI GGATG 1 cut(s) 203
BseLI CCNNNNNNNGG 1 cut(s) 223
BseMI GCAATG 1 cut(s) 630
BseRI GAGGAG 1 cut(s) 638
BshFI GGCC 2 cut(s) 258, 627
BsiSI CCGG 4 cut(s) 189, 269, 709, 894
BslFI GGGAC 1 cut(s) 235
BslI CCNNNNNNNGG 1 cut(s) 223
BsmAI GTCTC 1 cut(s) 98
BsmFI GGGAC 1 cut(s) 235
BsmI GAATGC 1 cut(s) 287
BsnI GGCC 2 cut(s) 258, 627
Bsp13I TCCGGA 1 cut(s) 188
Bsp143I GATC 2 cut(s) 99, 735
BspACI CCGC 4 cut(s) 237, 318, 717, 870
BspANI GGCC 2 cut(s) 258, 627
BspEI TCCGGA 1 cut(s) 188
BspHI TCATGA 1 cut(s) 169
BspPI GGATC 1 cut(s) 730
BsrDI GCAATG 1 cut(s) 630
BssECI CCNNGG 3 cut(s) 217, 253, 398
BssMI GATC 2 cut(s) 99, 735
BssT1I CCWWGG 2 cut(s) 217, 253
Bst2UI CCWGG 1 cut(s) 400
Bst4CI ACNGT 5 cut(s) 26, 226, 359, 723, 793
Bst6I CTCTTC 1 cut(s) 267
BstBAI YACGTR 2 cut(s) 112, 688
BstDEI CTNAG 1 cut(s) 11
BstEII GGTNACC 1 cut(s) 639
BstF5I GGATG 1 cut(s) 203
BstKTI GATC 2 cut(s) 102, 738
BstMAI GTCTC 1 cut(s) 98
BstMBI GATC 2 cut(s) 99, 735
BstMWI GCNNNNNNNGC 2 cut(s) 308, 317
BstNI CCWGG 1 cut(s) 400
BstPI GGTNACC 1 cut(s) 639
BstSCI CCNGG 2 cut(s) 398, 707
BstV2I GAAGAC 1 cut(s) 516
BsuRI GGCC 2 cut(s) 258, 627
BtsCI GGATG 1 cut(s) 203
BtsIMutI CAGTG 2 cut(s) 132, 290
CciI TCATGA 1 cut(s) 169
Cfr13I GGNCC 1 cut(s) 719
CpoI CGGWCCG 1 cut(s) 719
Csp6I GTAC 2 cut(s) 22, 934
CspI CGGWCCG 1 cut(s) 719
CviAII CATG 3 cut(s) 170, 241, 733
CviQI GTAC 2 cut(s) 22, 934
DdeI CTNAG 1 cut(s) 11
DpnI GATC 2 cut(s) 101, 737
DpnII GATC 2 cut(s) 99, 735
DraI TTTAAA 1 cut(s) 865
DrdI GACNNNNNNGTC 1 cut(s) 112
DseDI GACNNNNNNGTC 1 cut(s) 112
Eam1104I CTCTTC 1 cut(s) 267
EarI CTCTTC 1 cut(s) 267
Eco130I CCWWGG 2 cut(s) 217, 253
Eco47I GGWCC 1 cut(s) 719
Eco91I GGTNACC 1 cut(s) 639
EcoO65I GGTNACC 1 cut(s) 639
EcoRI GAATTC 1 cut(s) 86
EcoRII CCWGG 1 cut(s) 398
EcoT14I CCWWGG 2 cut(s) 217, 253
ErhI CCWWGG 2 cut(s) 217, 253
FaeI CATG 3 cut(s) 173, 244, 736
FaqI GGGAC 1 cut(s) 235
FatI CATG 3 cut(s) 169, 240, 732
FauNDI CATATG 1 cut(s) 938
Fnu4HI GCNGC 1 cut(s) 238
FokI GGATG 1 cut(s) 210
Fsp4HI GCNGC 1 cut(s) 238
FspBI CTAG 2 cut(s) 503, 590
GluI GCNGC 1 cut(s) 238
HaeIII GGCC 2 cut(s) 258, 627
HapII CCGG 4 cut(s) 189, 269, 709, 894
Hin1II CATG 3 cut(s) 173, 244, 736
HindIII AAGCTT 1 cut(s) 442
HinfI GANTC 2 cut(s) 436, 758
HpaII CCGG 4 cut(s) 189, 269, 709, 894
HphI GGTGA 2 cut(s) 883, 884
Hpy166II GTNNAC 4 cut(s) 702, 796, 819, 875
Hpy188I TCNGA 4 cut(s) 85, 375, 391, 763
Hpy188III TCNNGA 8 cut(s) 97, 103, 170, 189, 416, 728, 847, 928
Hpy8I GTNNAC 4 cut(s) 702, 796, 819, 875
Hpy99I CGWCG 1 cut(s) 136
HpyAV CCTTC 1 cut(s) 505
HpyCH4III ACNGT 5 cut(s) 26, 226, 359, 723, 793
HpyCH4IV ACGT 5 cut(s) 44, 111, 363, 687, 826
HpyCH4V TGCA 1 cut(s) 150
HpyF10VI GCNNNNNNNGC 2 cut(s) 308, 317
HpyF3I CTNAG 1 cut(s) 11
HpySE526I ACGT 5 cut(s) 44, 111, 363, 687, 826
Hsp92II CATG 3 cut(s) 173, 244, 736
Kpn2I TCCGGA 1 cut(s) 188
Kzo9I GATC 2 cut(s) 99, 735
LmnI GCTCC 1 cut(s) 896
LpnPI CCDG 7 cut(s) 202, 282, 385, 412, 609, 722, 907
LweI GCATC 1 cut(s) 148
MaeI CTAG 2 cut(s) 503, 590
MaeII ACGT 5 cut(s) 44, 111, 363, 687, 826
MaeIII GTNAC 5 cut(s) 56, 359, 639, 728, 889
MalI GATC 2 cut(s) 101, 737
MboI GATC 2 cut(s) 99, 735
MboII GAAGA 3 cut(s) 284, 457, 516
MluCI AATT 5 cut(s) 86, 248, 547, 607, 782
MlyI GAGTC 1 cut(s) 752
MmeI TCCRAC 1 cut(s) 413
MnlI CCTC 9 cut(s) 166, 268, 325, 340, 567, 638, 656, 659, 693
MroI TCCGGA 1 cut(s) 188
MroXI GAANNNNTTC 1 cut(s) 776
MseI TTAA 7 cut(s) 66, 366, 507, 546, 669, 864, 914
MslI CAYNNNNRTG 1 cut(s) 295
MspI CCGG 4 cut(s) 189, 269, 709, 894
MspR9I CCNGG 2 cut(s) 400, 709
Mva1269I GAATGC 1 cut(s) 287
MvaI CCWGG 1 cut(s) 400
MwoI GCNNNNNNNGC 2 cut(s) 308, 317
NciI CCSGG 1 cut(s) 709
NdeI CATATG 1 cut(s) 938
NdeII GATC 2 cut(s) 99, 735
NlaIII CATG 3 cut(s) 173, 244, 736
NmeAIII GCCGAG 2 cut(s) 164, 266
NmuCI GTSAC 2 cut(s) 728, 889
PagI TCATGA 1 cut(s) 169
PcsI WCGNNNNNNNCGW 1 cut(s) 108
PctI GAATGC 1 cut(s) 287
PdmI GAANNNNTTC 1 cut(s) 776
PfeI GAWTC 1 cut(s) 436
PflFI GACNNNGTC 1 cut(s) 723
PkrI GCNGC 1 cut(s) 239
PleI GAGTC 1 cut(s) 752
PpsI GAGTC 1 cut(s) 752
Ppu21I YACGTR 2 cut(s) 112, 688
Psp1406I AACGTT 2 cut(s) 363, 826
Psp6I CCWGG 1 cut(s) 398
PspEI GGTNACC 1 cut(s) 639
PspGI CCWGG 1 cut(s) 398
PspPI GGNCC 1 cut(s) 719
PsyI GACNNNGTC 1 cut(s) 723
RsaI GTAC 2 cut(s) 23, 935
RsaNI GTAC 2 cut(s) 22, 934
RseI CAYNNNNRTG 1 cut(s) 295
Rsr2I CGGWCCG 1 cut(s) 719
RsrII CGGWCCG 1 cut(s) 719
SaqAI TTAA 7 cut(s) 66, 366, 507, 546, 669, 864, 914
SatI GCNGC 1 cut(s) 238
Sau3AI GATC 2 cut(s) 99, 735
Sau96I GGNCC 1 cut(s) 719
SchI GAGTC 1 cut(s) 752
ScrFI CCNGG 2 cut(s) 400, 709
SfaNI GCATC 1 cut(s) 148
SinI GGWCC 1 cut(s) 719
SmiMI CAYNNNNRTG 1 cut(s) 295
Sse9I AATT 5 cut(s) 86, 248, 547, 607, 782
SsiI CCGC 4 cut(s) 237, 318, 717, 870
SspI AATATT 1 cut(s) 342
SspMI CTAG 2 cut(s) 503, 590
StyD4I CCNGG 2 cut(s) 398, 707
StyI CCWWGG 2 cut(s) 217, 253
TaaI ACNGT 5 cut(s) 26, 226, 359, 723, 793
TaiI ACGT 5 cut(s) 47, 114, 366, 690, 829
TaqI TCGA 3 cut(s) 90, 102, 417
TasI AATT 5 cut(s) 86, 248, 547, 607, 782
TatI WGTACW 1 cut(s) 933
TauI GCSGC 1 cut(s) 240
TfiI GAWTC 1 cut(s) 436
Tru1I TTAA 7 cut(s) 66, 366, 507, 546, 669, 864, 914
Tru9I TTAA 7 cut(s) 66, 366, 507, 546, 669, 864, 914
TscAI CASTG 2 cut(s) 132, 297
TseFI GTSAC 2 cut(s) 728, 889
Tsp45I GTSAC 2 cut(s) 728, 889
TspDTI ATGAA 1 cut(s) 451
TspGWI ACGGA 3 cut(s) 223, 470, 670
TspRI CASTG 2 cut(s) 132, 297
Tth111I GACNNNGTC 1 cut(s) 723
VpaK11BI GGWCC 1 cut(s) 719
XapI RAATTY 3 cut(s) 86, 248, 782
XmnI GAANNNNTTC 1 cut(s) 776
XspI CTAG 2 cut(s) 503, 590
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.