Rh6BG053400

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000073
Physical Location & Seq
Forward (+)
8717461 .. 8717799
339 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG053400.1

Sequence Viewer

Length: 339 bp
ATGTTTGATGTGGAGAATGTTAGGGAGATGGTGGATAACTTTGGAGAGTTCATTAAGATGGATGACCCTCTTGAAGGTGAAGAAGGCACCTACAGCTTTCTCCGTGTCAGAATTCTTCTTGATGCTCGTGATCCCCTACCCACGGGCTATGAACATCCGAGAGAGAATGGAACCAAGAAATGGGTTAGTTTTGCCTACGAGAAATTGTCTGATTTTTGTTATGTGTGTGGGAGATTAGGACATACTGATTTACCAAGAACTCCATGCCCCTATGGAGCTAATCCGGAGAATGAAAATGAGTATGGAGATTGGCTTAGAGCATTACCATCCCGGACGTAA
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_1 RVT_3 zf-CCHC_4 zf-RVT

Protein Analysis

112

Amino Acids

13.0

Weight (kDa)

4.69

Isoelectric Point (pI)

16.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC_4 PF14392 41 - 83 5.6e-11 Zinc knuckle
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)
AccB1I GGYRCC 1 cut(s) 86
AccB7I CCANNNNNTGG 1 cut(s) 180
AccIII TCCGGA 1 cut(s) 283
AclWI GGATC 1 cut(s) 125
AcsI RAATTY 1 cut(s) 111
AfiI CCNNNNNNNGG 3 cut(s) 74, 142, 180
AgsI TTSAA 1 cut(s) 74
AluBI AGCT 2 cut(s) 96, 278
AluI AGCT 2 cut(s) 96, 278
AlwI GGATC 1 cut(s) 125
Aor13HI TCCGGA 1 cut(s) 283
ApoI RAATTY 1 cut(s) 111
AsuC2I CCSGG 1 cut(s) 331
AsuHPI GGTGA 1 cut(s) 89
BanI GGYRCC 1 cut(s) 86
BauI CACGAG 1 cut(s) 126
BccI CCATC 3 cut(s) 22, 52, 334
BcnI CCSGG 1 cut(s) 331
BfmI CTRYAG 1 cut(s) 91
Bme1390I CCNGG 1 cut(s) 331
BmiI GGNNCC 2 cut(s) 88, 172
BmrFI CCNGG 1 cut(s) 331
BmsI GCATC 1 cut(s) 112
BpuMI CCSGG 1 cut(s) 331
BsaJI CCNNGG 1 cut(s) 141
BsaWI WCCGGW 1 cut(s) 283
Bsc4I CCNNNNNNNGG 3 cut(s) 74, 142, 180
BseAI TCCGGA 1 cut(s) 283
BseDI CCNNGG 1 cut(s) 141
BseGI GGATG 3 cut(s) 67, 154, 326
BseLI CCNNNNNNNGG 3 cut(s) 74, 142, 180
BshNI GGYRCC 1 cut(s) 86
BsiSI CCGG 2 cut(s) 284, 331
BslI CCNNNNNNNGG 3 cut(s) 74, 142, 180
Bsp13I TCCGGA 1 cut(s) 283
Bsp143I GATC 1 cut(s) 130
BspEI TCCGGA 1 cut(s) 283
BspLI GGNNCC 2 cut(s) 88, 172
BspPI GGATC 1 cut(s) 125
BspT107I GGYRCC 1 cut(s) 86
BssECI CCNNGG 1 cut(s) 141
BssMI GATC 1 cut(s) 130
BssSI CACGAG 1 cut(s) 126
Bst2BI CACGAG 1 cut(s) 126
BstDEI CTNAG 1 cut(s) 314
BstDSI CCRYGG 1 cut(s) 141
BstENI CCTNNNNNAGG 1 cut(s) 72
BstF5I GGATG 3 cut(s) 67, 154, 326
BstKTI GATC 1 cut(s) 133
BstMBI GATC 1 cut(s) 130
BstMWI GCNNNNNNNGC 1 cut(s) 93
BstSCI CCNGG 1 cut(s) 329
BstSFI CTRYAG 1 cut(s) 91
BtgI CCRYGG 1 cut(s) 141
BtsCI GGATG 3 cut(s) 67, 154, 326
CviAII CATG 1 cut(s) 264
CviJI RGCY 4 cut(s) 96, 147, 278, 313
CviKI_1 RGCY 4 cut(s) 96, 147, 278, 313
DdeI CTNAG 1 cut(s) 314
DpnI GATC 1 cut(s) 132
DpnII GATC 1 cut(s) 130
EcoNI CCTNNNNNAGG 1 cut(s) 72
EcoRI GAATTC 1 cut(s) 111
FaeI CATG 1 cut(s) 267
FaiI YATR 6 cut(s) 150, 222, 243, 265, 273, 303
FatI CATG 1 cut(s) 263
FokI GGATG 3 cut(s) 74, 141, 313
HapII CCGG 2 cut(s) 284, 331
Hin1II CATG 1 cut(s) 267
HpaII CCGG 2 cut(s) 284, 331
HphI GGTGA 1 cut(s) 89
Hpy188I TCNGA 3 cut(s) 110, 159, 211
Hpy188III TCNNGA 4 cut(s) 71, 119, 128, 284
HpyAV CCTTC 2 cut(s) 68, 77
HpyCH4IV ACGT 1 cut(s) 335
HpyF10VI GCNNNNNNNGC 1 cut(s) 93
HpyF3I CTNAG 1 cut(s) 314
HpySE526I ACGT 1 cut(s) 335
Hsp92II CATG 1 cut(s) 267
Kpn2I TCCGGA 1 cut(s) 283
Kzo9I GATC 1 cut(s) 130
LmnI GCTCC 1 cut(s) 275
LpnPI CCDG 1 cut(s) 297
LweI GCATC 1 cut(s) 112
MaeII ACGT 1 cut(s) 335
MalI GATC 1 cut(s) 132
MboI GATC 1 cut(s) 130
MboII GAAGA 2 cut(s) 92, 107
MluCI AATT 2 cut(s) 111, 203
MnlI CCTC 1 cut(s) 78
MroI TCCGGA 1 cut(s) 283
MseI TTAA 1 cut(s) 54
MslI CAYNNNNRTG 1 cut(s) 56
MspI CCGG 2 cut(s) 284, 331
MspR9I CCNGG 1 cut(s) 331
MwoI GCNNNNNNNGC 1 cut(s) 93
NciI CCSGG 1 cut(s) 331
NdeII GATC 1 cut(s) 130
NlaIII CATG 1 cut(s) 267
NlaIV GGNNCC 2 cut(s) 88, 172
PflMI CCANNNNNTGG 1 cut(s) 180
PfoI TCCNGGA 1 cut(s) 329
PspN4I GGNNCC 2 cut(s) 88, 172
RseI CAYNNNNRTG 1 cut(s) 56
SaqAI TTAA 1 cut(s) 54
Sau3AI GATC 1 cut(s) 130
ScrFI CCNGG 1 cut(s) 331
SetI ASST 5 cut(s) 79, 92, 98, 280, 338
SfaNI GCATC 1 cut(s) 112
SfcI CTRYAG 1 cut(s) 91
SmiMI CAYNNNNRTG 1 cut(s) 56
Sse9I AATT 2 cut(s) 111, 203
StyD4I CCNGG 1 cut(s) 329
TaiI ACGT 1 cut(s) 338
TasI AATT 2 cut(s) 111, 203
Tru1I TTAA 1 cut(s) 54
Tru9I TTAA 1 cut(s) 54
TspDTI ATGAA 3 cut(s) 40, 165, 306
TspGWI ACGGA 1 cut(s) 92
Van91I CCANNNNNTGG 1 cut(s) 180
XagI CCTNNNNNAGG 1 cut(s) 72
XapI RAATTY 1 cut(s) 111
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.