Rw3G029320

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000073
Physical Location & Seq
Forward (+)
45104716 .. 45105809
1094 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G029320.1

Sequence Viewer

Length: 444 bp
ATGGCATCGTCTTCTTCTCCCCAAGAGGAAATCCCTTTCGAGGATGAAGGCATCATTGAAGCTATGACTCTGAACTTTGAACAGAGTGTAGATTTCTTGGATATTGAGTCTGGCATCAACTTATGTGGAGTACTAATTGCTTATGAAGAACCTGGACAAGGTGGAGTTAAGGCTACGCTTATGGGCATCTGGAAATCCCTTGGTCAGATCCGGATTATCTGGGTCAAGAAGAACACTTACTGTCTGACAGTCGGATATGAGATGCTTGCTCGGAAATTGATCGAGGACAGCCCTTGGAACATCAAAGGGTATTGTTTCACGGTCCGACATTGGCCTCATTATCATTCAATTGATGATATTGAGGTCAATAGAGCTGGAAACATGAAATGGGAATGCTTCACGGGCCTTCAGTGGGTTGAGTATAAGGGTTGGGAATTGGGCTGA
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
DUF4283 RVT_3 zf-CCHC_4

Protein Analysis

147

Amino Acids

16.84

Weight (kDa)

4.74

Isoelectric Point (pI)

56.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4283 PF14111 48 - 114 3.1e-06 Domain of unknown function (DUF4283)
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: OG0000073)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g17821 FvH4_2g04610 FvH4_2g09611 FvH4_2g13563 FvH4_3g21493 FvH4_3g32115 FvH4_3g35060 FvH4_4g00220 FvH4_4g06410 FvH4_4g10367 FvH4_4g10367 FvH4_4g10367 FvH4_5g06101 FvH4_5g08842 FvH4_5g27366 FvH4_5g31283 FvH4_6g11611 FvH4_6g23032 FvH4_7g05661 FvH4_7g06172
malus_domestica MD13G1263700.v1.1
prunus_persica Prupe.1G292300_v2.0.a1 Prupe.5G009700_v2.0.a1 Prupe.6G158100_v2.0.a1 Prupe.8G025100_v2.0.a1 Prupe.8G042600_v2.0.a1
pyrus_communis pycom02g02250 pycom02g16030 pycom05g10490 pycom09g06450 pycom09g06460 pycom13g26200 pycom16g17700
rosa_chinensis RchiOBHm_Chr2g0163321 RchiOBHm_Chr4g0401981 RchiOBHm_Chr5g0005991 RchiOBHm_Chr5g0027191 RchiOBHm_Chr6g0249771
rosa_laevigata RLG00000001040 RLG00000001764 RLG00000002239 RLG00000002240 RLG00000003259 RLG00000008993 RLG00000013847 RLG00000014178 RLG00000015576 RLG00000017269 RLG00000017355 RLG00000018127 RLG00000018602 RLG00000018615 RLG00000019904 RLG00000020044 RLG00000021849 RLG00000021850 RLG00000027965 RLG00000029266 RLG00000029820 RLG00000031112 RLG00000031915 RLG00000033568 RLG00000035013 RLG00000035677 RLG00000036568 RLG00000036628
rosa_multiflora Rmu_co8254085.1_g000001 Rmu_co8462383.1_g000001 Rmu_sc0000185.1_g000049 Rmu_sc0000251.1_g000018 Rmu_sc0000367.1_g000094 Rmu_sc0000498.1_g000023 Rmu_sc0000868.1_g000005 Rmu_sc0001521.1_g000047 Rmu_sc0001534.1_g000007 Rmu_sc0002014.1_g000012 Rmu_sc0003214.1_g000009 Rmu_sc0003573.1_g000041 Rmu_sc0003832.1_g000023 Rmu_sc0004677.1_g000015 Rmu_sc0004967.1_g000014 Rmu_sc0005426.1_g000001 Rmu_sc0005621.1_g000004 Rmu_sc0005640.1_g000009 Rmu_sc0005947.1_g000034 Rmu_sc0006889.1_g000011 Rmu_sc0007121.1_g000014 Rmu_sc0009191.1_g000017 Rmu_sc0010556.1_g000011 Rmu_sc0011396.1_g000007 Rmu_sc0019862.1_g000002 Rmu_sc0022931.1_g000003 Rmu_sc0024164.1_g000001 Rmu_ssc0000391.1_g000027
rosa_roxburghii Rroxscaffold_1G00050060 Rroxscaffold_1G00061810 Rroxscaffold_2G00109590 Rroxscaffold_2G00113810 Rroxscaffold_2G00124040 Rroxscaffold_2G00143620 Rroxscaffold_2G00154760 Rroxscaffold_4G00302820 Rroxscaffold_4G00302830 Rroxscaffold_4G00308680 Rroxscaffold_4G00310240 Rroxscaffold_4G00327890 Rroxscaffold_5G00334600 Rroxscaffold_5G00336050 Rroxscaffold_5G00346560 Rroxscaffold_5G00347860 Rroxscaffold_5G00347870 Rroxscaffold_5G00349330 Rroxscaffold_5G00351980 Rroxscaffold_6G00395280 Rroxscaffold_6G00396750 Rroxscaffold_6G00402910 Rroxscaffold_7G00174790 Rroxscaffold_7G00177570 Rroxscaffold_7G00191820 Rroxscaffold_7G00203480 Rroxscaffold_7G00204380
rosa_rugosa Rorug01G0106600 Rorug01G0106600 Rorug01G0148500.1 Rorug02G0224200 Rorug02G0225500 Rorug02G0233000 Rorug02G0630400 Rorug03G0198000 Rorug03G0232600.1 Rorug03G0240500 Rorug04G0032900 Rorug04G0073300 Rorug04G0118500 Rorug04G0149600.1 Rorug04G0205100 Rorug04G0256700 Rorug05G0020200 Rorug05G0050000 Rorug05G0247300 Rorug05G0295100 Rorug05G0337900 Rorug05G0542600 Rorug06G0034800 Rorug06G0035100 Rorug06G0220100 Rorug07G0091900 Rorug07G0271200
rosa_samantha Rh1AG118200 Rh1AG253000 Rh1AG296300 Rh1AG409000 Rh1AG410600 Rh1BG073400 Rh1BG130400 Rh1BG147300 Rh1BG163600 Rh1CG016000 Rh1DG012200 Rh1DG012300 Rh1DG078600 Rh1DG078800 Rh1DG138100 Rh1DG179200 Rh1DG192600 Rh1DG194500 Rh1DG194600 Rh1DG214300 Rh1DG245900 Rh1DG267000 Rh1DG322700 Rh1DG442700 Rh2AG282000 Rh2AG423000 Rh2AG423100 Rh2AG460700 Rh2AG466200 Rh2AG513400 Rh2AG547000 Rh2BG277800 Rh2BG281200 Rh2BG298300 Rh2BG304300 Rh2BG433500 Rh2CG276000 Rh2CG282600 Rh2CG325500 Rh2CG393000 Rh2DG319200 Rh2DG443400 Rh3AG169300 Rh3AG303600 Rh3BG195000 Rh3BG282600 Rh3BG343400 Rh3BG343500 Rh3BG344100 Rh3CG111700 Rh3CG185700 Rh3CG259100 Rh3CG293000 Rh3CG317900 Rh3CG340900 Rh3CG341000 Rh3CG341100 Rh3CG354700 Rh3CG359200 Rh3CG368100 Rh3DG179900 Rh3DG288700 Rh3DG302600 Rh3DG316000 Rh3DG324500 Rh3DG324600 Rh3DG343200 Rh3DG343300 Rh3DG362400 Rh4AG071800 Rh4BG034000 Rh4BG044300 Rh4BG044400 Rh4BG069600 Rh4BG157400 Rh4CG007000 Rh4CG030400 Rh4CG037900 Rh4CG077700 Rh4CG115000 Rh4CG162400 Rh4CG162500 Rh4CG165500 Rh4CG165600 Rh4CG172900 Rh4CG239700 Rh4DG055900 Rh4DG173200 Rh5AG354900 Rh5AG511100 Rh5BG112600 Rh5BG541000 Rh5BG541100 Rh5BG549300 Rh5CG004400 Rh5CG315000 Rh5CG563800 Rh5CG572100 Rh5DG112200 Rh5DG191300 Rh5DG407600 Rh5DG407700 Rh5DG567500 Rh6AG002600 Rh6AG051400 Rh6AG199800 Rh6AG199900 Rh6AG206200 Rh6AG391000 Rh6AG391100 Rh6BG007500 Rh6BG053400 Rh6BG225900 Rh6BG227100 Rh6BG232400 Rh6CG091100 Rh6CG125400 Rh6CG186700 Rh6CG222700 Rh6CG222800 Rh6CG235500 Rh6CG247200 Rh6CG331200 Rh6CG465100 Rh6DG183500 Rh6DG213500 Rh6DG238800 Rh6DG263700 Rh7AG211800 Rh7AG441800 Rh7BG008600 Rh7BG253000 Rh7BG390000 Rh7CG189600 Rh7CG401500 Rh7CG424200 Rh7CG428700 Rh7CG479800 Rh7CG494300 Rh7DG177000 Rh7DG218700 Rh7DG254000 Rh7DG294800 Rh7DG407200 Rh7DG448800 Rh7DG461500
rosa_wichuraiana Rw0G012180 Rw1G005270 Rw1G012310 Rw1G016890 Rw1G021700 Rw2G014380 Rw2G027690 Rw3G016400 Rw3G028230 Rw3G029320 Rw4G002060 Rw4G002100 Rw4G003980 Rw4G014140 Rw4G014770 Rw4G014780 Rw4G015760 Rw4G021230 Rw5G000520 Rw5G035610 Rw6G001680 Rw6G017890 Rw6G027440 Rw6G034130 Rw6G034170 Rw7G012430 Rw7G033870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 210
AclWI GGATC 1 cut(s) 202
AcuI CTGAAG 1 cut(s) 392
AfaI GTAC 1 cut(s) 132
AfiI CCNNNNNNNGG 3 cut(s) 40, 158, 412
AgsI TTSAA 3 cut(s) 59, 80, 348
AjnI CCWGG 1 cut(s) 151
AluBI AGCT 2 cut(s) 62, 374
AluI AGCT 2 cut(s) 62, 374
AlwI GGATC 1 cut(s) 202
Aor13HI TCCGGA 1 cut(s) 210
AoxI GGCC 2 cut(s) 332, 403
AspS9I GGNCC 2 cut(s) 322, 403
AvaII GGWCC 1 cut(s) 322
BarI GAAGNNNNNNTAC 2 cut(s) 221, 253
BbsI GAAGAC 1 cut(s) 3
BciT130I CCWGG 1 cut(s) 153
BmcAI AGTACT 1 cut(s) 132
Bme1390I CCNGG 1 cut(s) 153
Bme18I GGWCC 1 cut(s) 322
BmgT120I GGNCC 2 cut(s) 322, 403
BmrFI CCNGG 1 cut(s) 153
BmsI GCATC 5 cut(s) 14, 60, 123, 195, 252
BpiI GAAGAC 1 cut(s) 3
BsaJI CCNNGG 2 cut(s) 199, 293
BsaWI WCCGGW 1 cut(s) 210
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 158, 412
BseAI TCCGGA 1 cut(s) 210
BseBI CCWGG 1 cut(s) 153
BseDI CCNNGG 2 cut(s) 199, 293
BseGI GGATG 1 cut(s) 49
BseLI CCNNNNNNNGG 3 cut(s) 40, 158, 412
BshFI GGCC 2 cut(s) 334, 405
BsiSI CCGG 1 cut(s) 211
BslI CCNNNNNNNGG 3 cut(s) 40, 158, 412
BsmI GAATGC 1 cut(s) 398
BsnI GGCC 2 cut(s) 334, 405
Bsp13I TCCGGA 1 cut(s) 210
Bsp143I GATC 2 cut(s) 207, 279
BspANI GGCC 2 cut(s) 334, 405
BspEI TCCGGA 1 cut(s) 210
BspPI GGATC 1 cut(s) 202
BssECI CCNNGG 2 cut(s) 199, 293
BssMI GATC 2 cut(s) 207, 279
BssT1I CCWWGG 2 cut(s) 199, 293
Bst2UI CCWGG 1 cut(s) 153
Bst4CI ACNGT 3 cut(s) 242, 250, 322
BstC8I GCNNGC 1 cut(s) 267
BstENI CCTNNNNNAGG 1 cut(s) 156
BstF5I GGATG 1 cut(s) 49
BstKTI GATC 2 cut(s) 210, 282
BstMBI GATC 2 cut(s) 207, 279
BstMWI GCNNNNNNNGC 1 cut(s) 402
BstNI CCWGG 1 cut(s) 153
BstSCI CCNGG 1 cut(s) 151
BstV2I GAAGAC 1 cut(s) 3
BstX2I RGATCY 1 cut(s) 207
BstYI RGATCY 1 cut(s) 207
BsuRI GGCC 2 cut(s) 334, 405
BtsCI GGATG 1 cut(s) 49
BtsIMutI CAGTG 1 cut(s) 416
Cac8I GCNNGC 1 cut(s) 267
Cfr13I GGNCC 2 cut(s) 322, 403
CpoI CGGWCCG 1 cut(s) 322
Csp6I GTAC 1 cut(s) 131
CspCI CAANNNNNGTGG 2 cut(s) 106, 141
CspI CGGWCCG 1 cut(s) 322
CviAII CATG 1 cut(s) 382
CviJI RGCY 7 cut(s) 62, 173, 291, 334, 374, 405, 441
CviKI_1 RGCY 7 cut(s) 62, 173, 291, 334, 374, 405, 441
CviQI GTAC 1 cut(s) 131
DpnI GATC 2 cut(s) 209, 281
DpnII GATC 2 cut(s) 207, 279
Eco130I CCWWGG 2 cut(s) 199, 293
Eco47I GGWCC 1 cut(s) 322
Eco57I CTGAAG 1 cut(s) 392
EcoNI CCTNNNNNAGG 1 cut(s) 156
EcoRII CCWGG 1 cut(s) 151
EcoT14I CCWWGG 2 cut(s) 199, 293
ErhI CCWWGG 2 cut(s) 199, 293
FaeI CATG 1 cut(s) 385
FaiI YATR 7 cut(s) 65, 124, 144, 182, 258, 383, 423
FatI CATG 1 cut(s) 381
FokI GGATG 1 cut(s) 56
HaeIII GGCC 2 cut(s) 334, 405
HapII CCGG 1 cut(s) 211
Hin1II CATG 1 cut(s) 385
HinfI GANTC 2 cut(s) 67, 107
HpaII CCGG 1 cut(s) 211
Hpy188I TCNGA 6 cut(s) 72, 207, 246, 254, 273, 326
Hpy188III TCNNGA 3 cut(s) 190, 211, 226
HpyAV CCTTC 2 cut(s) 41, 416
HpyCH4III ACNGT 3 cut(s) 242, 250, 322
HpyF10VI GCNNNNNNNGC 1 cut(s) 402
Hsp92II CATG 1 cut(s) 385
Kpn2I TCCGGA 1 cut(s) 210
Kzo9I GATC 2 cut(s) 207, 279
LpnPI CCDG 7 cut(s) 96, 138, 165, 175, 205, 224, 360
LweI GCATC 5 cut(s) 14, 60, 123, 195, 252
MalI GATC 2 cut(s) 209, 281
MboI GATC 2 cut(s) 207, 279
MboII GAAGA 4 cut(s) 3, 6, 158, 241
MfeI CAATTG 1 cut(s) 348
MflI RGATCY 1 cut(s) 207
MluCI AATT 4 cut(s) 135, 275, 348, 434
MlyI GAGTC 2 cut(s) 61, 116
MmeI TCCRAC 2 cut(s) 232, 349
MnlI CCTC 5 cut(s) 19, 34, 277, 345, 355
MroI TCCGGA 1 cut(s) 210
MseI TTAA 1 cut(s) 168
MspI CCGG 1 cut(s) 211
MspR9I CCNGG 1 cut(s) 153
MunI CAATTG 1 cut(s) 348
Mva1269I GAATGC 1 cut(s) 398
MvaI CCWGG 1 cut(s) 153
MwoI GCNNNNNNNGC 1 cut(s) 402
NdeII GATC 2 cut(s) 207, 279
NlaIII CATG 1 cut(s) 385
PctI GAATGC 1 cut(s) 398
PleI GAGTC 2 cut(s) 61, 115
PpsI GAGTC 2 cut(s) 61, 115
Psp6I CCWGG 1 cut(s) 151
PspGI CCWGG 1 cut(s) 151
PspPI GGNCC 2 cut(s) 322, 403
PsuI RGATCY 1 cut(s) 207
RsaI GTAC 1 cut(s) 132
RsaNI GTAC 1 cut(s) 131
Rsr2I CGGWCCG 1 cut(s) 322
RsrII CGGWCCG 1 cut(s) 322
SaqAI TTAA 1 cut(s) 168
Sau3AI GATC 2 cut(s) 207, 279
Sau96I GGNCC 2 cut(s) 322, 403
ScaI AGTACT 1 cut(s) 132
SchI GAGTC 2 cut(s) 61, 116
ScrFI CCNGG 1 cut(s) 153
SetI ASST 5 cut(s) 64, 154, 163, 366, 376
SfaNI GCATC 5 cut(s) 14, 60, 123, 195, 252
SinI GGWCC 1 cut(s) 322
Sse9I AATT 4 cut(s) 135, 275, 348, 434
StyD4I CCNGG 1 cut(s) 151
StyI CCWWGG 2 cut(s) 199, 293
TaaI ACNGT 3 cut(s) 242, 250, 322
TaqI TCGA 2 cut(s) 39, 282
TasI AATT 4 cut(s) 135, 275, 348, 434
TatI WGTACW 1 cut(s) 130
Tru1I TTAA 1 cut(s) 168
Tru9I TTAA 1 cut(s) 168
TscAI CASTG 1 cut(s) 416
TspDTI ATGAA 3 cut(s) 60, 159, 398
TspRI CASTG 1 cut(s) 416
VpaK11BI GGWCC 1 cut(s) 322
XagI CCTNNNNNAGG 1 cut(s) 156
ZrmI AGTACT 1 cut(s) 132
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.