AT5G42905

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0000890
Physical Location & Seq
Reverse (-)
17201414 .. 17202323
910 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G42905.1

Sequence Viewer

Length: 777 bp
ATGACAGATGAGGAACGGCATCGAAGACATCTTAGCGCCTCGAATGTGTCTCAGGTTTATATAGGTGGAGTTGAATCTGTGCTTCACGTGTTTAGAGACTGTCCAGCTCAATTGGGGATTTGGGTCAGATTTGTGCCGCGAAGGAGGCAGCAGGGGTTCTTTTCGAAATCTCTGTTTGAATGGCTCTATGATAACTTGTGTGATAGGAGTAGCTGTGAGGATATACCGTGGTCCACCATTTTTGCGGTGATAATATGGTGGGGGTGGAAGTGGAGATGCAGTAATATATTTGGGGAGAACACGAAATGCAGGGACCGTGTGAAATTTGTTAAAGAGTGGGTTGTGGAAGTGTATAGAGCACATTTGGGTAACGCTTTGGTTGGAAGTACGCAACCTAGAGTTGAACGGCTGATTGGTTGGGTGCTTCCATGTGTGGGTTGGGTGAAAGTAAACACAGATGGGGCGTCTCGTGGAAATCCGGGGCTGGCTTCTGCAGGCGGAGTACTACGGGATTGTGAAGGAGCTTGGTGTGGTGGCTTTTCTCTAAATATAGGCCGATGCTCAGCTCAACATGCAGAGCTATGGGGAGTGTATTACGGATTGTATTTCGCATGGGAGAAGAAGGTGCCTCGAGTGGAGTTGGAGGTGGATTCAGAGGCGATAGTGGGTTTCCTCAAAACAGGGATTAGTGACTCTCATCCGCTGTCATTCCTGGTGCGGTTGTGCCACAACTTTCTACAGAAAGACTGGAGGATACTCTTGGGTCTACTCAACTAA
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_3 zf-RVT

Protein Analysis

258

Amino Acids

29.54

Weight (kDa)

8.69

Isoelectric Point (pI)

32.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 151 - 254 1.3e-16 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
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Orthologous Genes (Group: OG0000890)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42905
fragaria_vesca FvH4_1g15070 FvH4_1g21661 FvH4_1g24182 FvH4_2g15861 FvH4_7g26563
prunus_persica Prupe.1G097800_v2.0.a1 Prupe.1G446500_v2.0.a1 Prupe.4G161900_v2.0.a1 Prupe.5G085900_v2.0.a1 Prupe.6G118100_v2.0.a1 Prupe.6G201000_v2.0.a1 Prupe.7G199700_v2.0.a1
pyrus_communis pycom07g22740 pycom15g37390 pycom420g00480 pycom420g00490
rosa_chinensis RchiOBHm_Chr1g0319821 RchiOBHm_Chr1g0331331 RchiOBHm_Chr2g0144631 RchiOBHm_Chr2g0146161 RchiOBHm_Chr2g0152401 RchiOBHm_Chr3g0484381 RchiOBHm_Chr3g0484471 RchiOBHm_Chr3g0494391 RchiOBHm_Chr4g0411801 RchiOBHm_Chr4g0426191 RchiOBHm_Chr5g0016411 RchiOBHm_Chr5g0074971 RchiOBHm_Chr6g0262791 RchiOBHm_Chr6g0272021 RchiOBHm_Chr7g0181271 RchiOBHm_Chr7g0224511 RchiOBHm_Chr7g0225251
rosa_laevigata RLG00000017287
rosa_multiflora Rmu_co8215414.1_g000001 Rmu_sc0001850.1_g000028 Rmu_sc0002132.1_g000045 Rmu_sc0003623.1_g000032 Rmu_sc0003826.1_g000010 Rmu_sc0004165.1_g000032 Rmu_sc0004805.1_g000052 Rmu_sc0005837.1_g000007 Rmu_sc0011261.1_g000003 Rmu_sc0012066.1_g000001 Rmu_sc0021240.1_g000002 Rmu_sc0028377.1_g000003 Rmu_ssc0000454.1_g000003
rosa_roxburghii Rroxscaffold_177G00434230 Rroxscaffold_180G00433210 Rroxscaffold_1G00050960 Rroxscaffold_2G00112540 Rroxscaffold_7G00172420
rosa_rugosa Rorug02G0446000 Rorug03G0370600 Rorug04G0217600.1 Rorug07G0160200 Rorug07G0292300.1
rosa_samantha Rh3AG161100 Rh5AG403600 Rh5CG315600 Rh5CG315800 Rh6BG408500 Rh7CG313500
rosa_wichuraiana Rw4G023910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 625
AccI GTMKAC 1 cut(s) 766
AccII CGCG 1 cut(s) 139
AciI CCGC 5 cut(s) 137, 245, 498, 701, 718
AcsI RAATTY 1 cut(s) 323
AcvI CACGTG 1 cut(s) 88
AcyI GRCGYC 1 cut(s) 464
AfaI GTAC 2 cut(s) 388, 504
AfiI CCNNNNNNNGG 1 cut(s) 434
AflIII ACRYGT 1 cut(s) 87
AgsI TTSAA 3 cut(s) 74, 179, 404
AjnI CCWGG 1 cut(s) 711
AjuI GAANNNNNNNTTGG 2 cut(s) 396, 428
AluBI AGCT 5 cut(s) 107, 213, 524, 566, 580
AluI AGCT 5 cut(s) 107, 213, 524, 566, 580
Alw21I GWGCWC 1 cut(s) 361
Alw26I GTCTC 3 cut(s) 54, 90, 471
Ama87I CYCGRG 1 cut(s) 630
AoxI GGCC 1 cut(s) 553
ApeKI GCWGC 1 cut(s) 148
ApoI RAATTY 1 cut(s) 323
AspLEI GCGC 1 cut(s) 38
AspS9I GGNCC 2 cut(s) 231, 313
AsuC2I CCSGG 1 cut(s) 480
AsuHPI GGTGA 2 cut(s) 259, 454
AsuII TTCGAA 1 cut(s) 164
AvaI CYCGRG 1 cut(s) 630
AvaII GGWCC 2 cut(s) 231, 313
BanI GGYRCC 1 cut(s) 625
BauI CACGAG 1 cut(s) 468
BbrPI CACGTG 1 cut(s) 88
BbsI GAAGAC 1 cut(s) 31
Bbv12I GWGCWC 1 cut(s) 361
BbvI GCAGC 1 cut(s) 160
BccI CCATC 1 cut(s) 452
BceAI ACGGC 2 cut(s) 32, 422
BciT130I CCWGG 1 cut(s) 713
BciVI GTATCC 1 cut(s) 747
BcnI CCSGG 1 cut(s) 480
BcoDI GTCTC 3 cut(s) 54, 90, 471
BfaI CTAG 1 cut(s) 396
BfmI CTRYAG 2 cut(s) 492, 737
BfoI RGCGCY 1 cut(s) 39
BfuI GTATCC 1 cut(s) 747
BisI GCNGC 2 cut(s) 137, 149
BlpI GCTNAGC 1 cut(s) 562
BlsI GCNGC 2 cut(s) 138, 150
BmcAI AGTACT 1 cut(s) 504
Bme1390I CCNGG 2 cut(s) 480, 713
Bme18I GGWCC 2 cut(s) 231, 313
BmeT110I CYCGRG 1 cut(s) 630
BmgT120I GGNCC 2 cut(s) 231, 313
BmiI GGNNCC 2 cut(s) 314, 627
BmrFI CCNGG 2 cut(s) 480, 713
BmsI GCATC 3 cut(s) 28, 266, 548
BpiI GAAGAC 1 cut(s) 31
BpmI CTGGAG 1 cut(s) 769
Bpu1102I GCTNAGC 1 cut(s) 562
Bpu14I TTCGAA 1 cut(s) 164
BpuMI CCSGG 1 cut(s) 480
BsaAI YACGTR 1 cut(s) 88
BsaHI GRCGYC 1 cut(s) 464
BsaJI CCNNGG 2 cut(s) 227, 479
BsaXI ACNNNNNCTCC 4 cut(s) 199, 229, 265, 295
Bsc4I CCNNNNNNNGG 1 cut(s) 434
Bse1I ACTGG 1 cut(s) 752
BseBI CCWGG 1 cut(s) 713
BseDI CCNNGG 2 cut(s) 227, 479
BseGI GGATG 1 cut(s) 697
BseLI CCNNNNNNNGG 1 cut(s) 434
BseMII CTCAG 2 cut(s) 65, 576
BseNI ACTGG 1 cut(s) 752
BseXI GCAGC 1 cut(s) 160
Bsh1236I CGCG 1 cut(s) 139
BshFI GGCC 1 cut(s) 555
BshNI GGYRCC 1 cut(s) 625
BsiHKAI GWGCWC 1 cut(s) 361
BsiHKCI CYCGRG 1 cut(s) 630
BsiSI CCGG 1 cut(s) 479
BslFI GGGAC 1 cut(s) 326
BslI CCNNNNNNNGG 1 cut(s) 434
BsmAI GTCTC 3 cut(s) 54, 90, 471
BsmBI CGTCTC 1 cut(s) 471
BsmFI GGGAC 1 cut(s) 326
BsnI GGCC 1 cut(s) 555
BsoBI CYCGRG 1 cut(s) 630
Bsp119I TTCGAA 1 cut(s) 164
Bsp1286I GDGCHC 1 cut(s) 361
Bsp1720I GCTNAGC 1 cut(s) 562
BspACI CCGC 5 cut(s) 137, 245, 498, 701, 718
BspANI GGCC 1 cut(s) 555
BspCNI CTCAG 2 cut(s) 64, 575
BspFNI CGCG 1 cut(s) 139
BspLI GGNNCC 2 cut(s) 314, 627
BspMAI CTGCAG 1 cut(s) 496
BspT104I TTCGAA 1 cut(s) 164
BspT107I GGYRCC 1 cut(s) 625
BsrI ACTGG 1 cut(s) 752
BssECI CCNNGG 2 cut(s) 227, 479
BssNI GRCGYC 1 cut(s) 464
BssSI CACGAG 1 cut(s) 468
Bst2BI CACGAG 1 cut(s) 468
Bst2UI CCWGG 1 cut(s) 713
Bst4CI ACNGT 3 cut(s) 101, 228, 317
BstACI GRCGYC 1 cut(s) 464
BstBAI YACGTR 1 cut(s) 88
BstBI TTCGAA 1 cut(s) 164
BstC8I GCNNGC 2 cut(s) 486, 496
BstDEI CTNAG 3 cut(s) 32, 51, 562
BstDSI CCRYGG 1 cut(s) 227
BstF5I GGATG 1 cut(s) 697
BstFNI CGCG 1 cut(s) 139
BstH2I RGCGCY 1 cut(s) 39
BstHHI GCGC 1 cut(s) 38
BstMAI GTCTC 3 cut(s) 54, 90, 471
BstMWI GCNNNNNNNGC 2 cut(s) 145, 572
BstNI CCWGG 1 cut(s) 713
BstNSI RCATGY 1 cut(s) 575
BstSCI CCNGG 2 cut(s) 478, 711
BstSFI CTRYAG 2 cut(s) 492, 737
BstUI CGCG 1 cut(s) 139
BstV1I GCAGC 1 cut(s) 160
BstV2I GAAGAC 1 cut(s) 31
BsuI GTATCC 1 cut(s) 747
BsuRI GGCC 1 cut(s) 555
BtgI CCRYGG 1 cut(s) 227
BtsCI GGATG 1 cut(s) 697
Cac8I GCNNGC 2 cut(s) 486, 496
CfoI GCGC 1 cut(s) 38
Cfr13I GGNCC 2 cut(s) 231, 313
CseI GACGC 1 cut(s) 453
Csp6I GTAC 2 cut(s) 387, 503
CspCI CAANNNNNGTGG 2 cut(s) 223, 258
CviAII CATG 3 cut(s) 429, 572, 612
CviQI GTAC 2 cut(s) 387, 503
DdeI CTNAG 3 cut(s) 32, 51, 562
EciI GGCGGA 1 cut(s) 513
Eco47I GGWCC 2 cut(s) 231, 313
Eco72I CACGTG 1 cut(s) 88
Eco88I CYCGRG 1 cut(s) 630
EcoRII CCWGG 1 cut(s) 711
Esp3I CGTCTC 1 cut(s) 471
FaeI CATG 3 cut(s) 432, 575, 615
FaqI GGGAC 1 cut(s) 326
FatI CATG 3 cut(s) 428, 571, 611
FblI GTMKAC 1 cut(s) 766
Fnu4HI GCNGC 2 cut(s) 137, 149
FokI GGATG 1 cut(s) 684
Fsp4HI GCNGC 2 cut(s) 137, 149
FspBI CTAG 1 cut(s) 396
GlaI GCGC 1 cut(s) 37
GluI GCNGC 2 cut(s) 137, 149
GsuI CTGGAG 1 cut(s) 769
HaeII RGCGCY 1 cut(s) 39
HaeIII GGCC 1 cut(s) 555
HapII CCGG 1 cut(s) 479
HgaI GACGC 1 cut(s) 453
HhaI GCGC 1 cut(s) 38
Hin1I GRCGYC 1 cut(s) 464
Hin1II CATG 3 cut(s) 432, 575, 615
Hin6I GCGC 1 cut(s) 36
HinP1I GCGC 1 cut(s) 36
HinfI GANTC 3 cut(s) 74, 650, 692
HpaII CCGG 1 cut(s) 479
HphI GGTGA 2 cut(s) 259, 454
Hpy166II GTNNAC 3 cut(s) 234, 451, 767
Hpy188I TCNGA 2 cut(s) 128, 655
Hpy8I GTNNAC 3 cut(s) 234, 451, 767
HpyAV CCTTC 3 cut(s) 135, 512, 616
HpyCH4III ACNGT 3 cut(s) 101, 228, 317
HpyCH4IV ACGT 1 cut(s) 87
HpyCH4V TGCA 4 cut(s) 279, 309, 494, 575
HpyF10VI GCNNNNNNNGC 2 cut(s) 145, 572
HpyF3I CTNAG 3 cut(s) 32, 51, 562
HpySE526I ACGT 1 cut(s) 87
Hsp92I GRCGYC 1 cut(s) 464
Hsp92II CATG 3 cut(s) 432, 575, 615
HspAI GCGC 1 cut(s) 36
LmnI GCTCC 1 cut(s) 521
Lsp1109I GCAGC 1 cut(s) 160
LweI GCATC 3 cut(s) 28, 266, 548
MaeI CTAG 1 cut(s) 396
MaeII ACGT 1 cut(s) 87
MaeIII GTNAC 2 cut(s) 368, 689
MboII GAAGA 2 cut(s) 36, 631
MfeI CAATTG 1 cut(s) 110
MhlI GDGCHC 1 cut(s) 361
MluCI AATT 2 cut(s) 110, 323
MlyI GAGTC 1 cut(s) 686
MmeI TCCRAC 2 cut(s) 361, 621
MnlI CCTC 9 cut(s) 4, 49, 138, 211, 637, 639, 649, 683, 744
MseI TTAA 1 cut(s) 330
MspA1I CMGCKG 1 cut(s) 703
MspI CCGG 1 cut(s) 479
MspR9I CCNGG 2 cut(s) 480, 713
MunI CAATTG 1 cut(s) 110
MvaI CCWGG 1 cut(s) 713
MvnI CGCG 1 cut(s) 139
MwoI GCNNNNNNNGC 2 cut(s) 145, 572
NciI CCSGG 1 cut(s) 480
NlaIII CATG 3 cut(s) 432, 575, 615
NlaIV GGNNCC 2 cut(s) 314, 627
NmuCI GTSAC 1 cut(s) 689
NspI RCATGY 1 cut(s) 575
NspV TTCGAA 1 cut(s) 164
PaeR7I CTCGAG 1 cut(s) 630
PfeI GAWTC 2 cut(s) 74, 650
PkrI GCNGC 2 cut(s) 138, 150
PleI GAGTC 1 cut(s) 686
PmaCI CACGTG 1 cut(s) 88
PmlI CACGTG 1 cut(s) 88
PpsI GAGTC 1 cut(s) 686
Ppu21I YACGTR 1 cut(s) 88
Psp6I CCWGG 1 cut(s) 711
PspCI CACGTG 1 cut(s) 88
PspGI CCWGG 1 cut(s) 711
PspN4I GGNNCC 2 cut(s) 314, 627
PspPI GGNCC 2 cut(s) 231, 313
PspXI VCTCGAGB 1 cut(s) 630
PstI CTGCAG 1 cut(s) 496
RsaI GTAC 2 cut(s) 388, 504
RsaNI GTAC 2 cut(s) 387, 503
SaqAI TTAA 1 cut(s) 330
SatI GCNGC 2 cut(s) 137, 149
Sau96I GGNCC 2 cut(s) 231, 313
ScaI AGTACT 1 cut(s) 504
SchI GAGTC 1 cut(s) 686
ScrFI CCNGG 2 cut(s) 480, 713
SduI GDGCHC 1 cut(s) 361
SfaNI GCATC 3 cut(s) 28, 266, 548
SfcI CTRYAG 2 cut(s) 492, 737
Sfr274I CTCGAG 1 cut(s) 630
SfuI TTCGAA 1 cut(s) 164
SinI GGWCC 2 cut(s) 231, 313
SlaI CTCGAG 1 cut(s) 630
SmlI CTYRAG 1 cut(s) 630
SmoI CTYRAG 1 cut(s) 630
Sse9I AATT 2 cut(s) 110, 323
SsiI CCGC 5 cut(s) 137, 245, 498, 701, 718
SspMI CTAG 1 cut(s) 396
StyD4I CCNGG 2 cut(s) 478, 711
TaaI ACNGT 3 cut(s) 101, 228, 317
TaiI ACGT 1 cut(s) 90
TaqI TCGA 4 cut(s) 22, 41, 164, 631
TasI AATT 2 cut(s) 110, 323
TatI WGTACW 1 cut(s) 502
TauI GCSGC 1 cut(s) 139
TfiI GAWTC 2 cut(s) 74, 650
Tru1I TTAA 1 cut(s) 330
Tru9I TTAA 1 cut(s) 330
TseFI GTSAC 1 cut(s) 689
TseI GCWGC 1 cut(s) 148
Tsp45I GTSAC 1 cut(s) 689
TspGWI ACGGA 1 cut(s) 612
VpaK11BI GGWCC 2 cut(s) 231, 313
XapI RAATTY 1 cut(s) 323
XceI RCATGY 1 cut(s) 575
XcmI CCANNNNNNNNNTGG 1 cut(s) 435
XhoI CTCGAG 1 cut(s) 630
XmiI GTMKAC 1 cut(s) 766
XspI CTAG 1 cut(s) 396
ZrmI AGTACT 1 cut(s) 504
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.