Rroxscaffold_5G00346560

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000073
Physical Location & Seq
Reverse (-)
17485826 .. 17486576
751 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00346560.1

Sequence Viewer

Length: 468 bp
ATGGCCTCCCCTTCAGTGGACCATGAGGAAATTCTCTTTGAAGATGAGAAAATTATTGAAGCGATGTCTGTCAATTTCGAGAATAGTGTTGGCTTCCTCGACTTGGAGTGTGCTCATAGAGTACCTCTAGATCTGCTATCTCTCAACAATGGAAGGCCAGGAAGGGTATTAGGAAATGTTTTGTGTTCGGTTATTGATGTAGAGGATCACTTATATGTTGGCAATAGTGATTTTATAAGGTTGACGATTGCTTTTCATGCTAAGAAACCGCTGGCCACCTTTGCTAGACTCCCCAGAGCTGATTCCTTGTTCTTCAAGAACAAGTTGCAATGTGAGAACTTGAAAAACTTTCGCCATAACTATGGTCCATGGGACCATAGGCTATCTTCTTACAGATTCAGGAAGCTCCCCATTCTTGTTCTTTTTGGAGTGGTTTATGATTCTTCACCAGTTGCAGAACCTCCCTAG
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

155

Amino Acids

17.64

Weight (kDa)

6.05

Isoelectric Point (pI)

42.28

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
AanI TTATAA 1 cut(s) 236
AciI CCGC 1 cut(s) 269
AclWI GGATC 1 cut(s) 213
AcoI YGGCCR 1 cut(s) 273
AcsI RAATTY 1 cut(s) 30
AfaI GTAC 1 cut(s) 123
AfiI CCNNNNNNNGG 2 cut(s) 16, 103
AgsI TTSAA 4 cut(s) 41, 59, 316, 343
AjnI CCWGG 1 cut(s) 157
AluBI AGCT 2 cut(s) 299, 406
AluI AGCT 2 cut(s) 299, 406
Alw21I GWGCWC 1 cut(s) 115
AlwI GGATC 1 cut(s) 213
AoxI GGCC 3 cut(s) 3, 155, 273
ApoI RAATTY 1 cut(s) 30
AspS9I GGNCC 3 cut(s) 19, 365, 373
AsuHPI GGTGA 1 cut(s) 438
AvaII GGWCC 3 cut(s) 19, 365, 373
BalI TGGCCA 1 cut(s) 275
Bbv12I GWGCWC 1 cut(s) 115
BciT130I CCWGG 1 cut(s) 159
BfaI CTAG 3 cut(s) 128, 285, 466
BglII AGATCT 1 cut(s) 130
Bme1390I CCNGG 1 cut(s) 159
Bme18I GGWCC 3 cut(s) 19, 365, 373
BmgT120I GGNCC 3 cut(s) 19, 365, 373
BmiI GGNNCC 1 cut(s) 374
BmrFI CCNGG 1 cut(s) 159
BsaJI CCNNGG 1 cut(s) 368
Bsc4I CCNNNNNNNGG 2 cut(s) 16, 103
Bse1I ACTGG 1 cut(s) 449
Bse3DI GCAATG 1 cut(s) 335
BseBI CCWGG 1 cut(s) 159
BseDI CCNNGG 1 cut(s) 368
BseLI CCNNNNNNNGG 2 cut(s) 16, 103
BseMI GCAATG 1 cut(s) 335
BseNI ACTGG 1 cut(s) 449
BshFI GGCC 3 cut(s) 5, 157, 275
BsiHKAI GWGCWC 1 cut(s) 115
BslFI GGGAC 1 cut(s) 386
BslI CCNNNNNNNGG 2 cut(s) 16, 103
BsmFI GGGAC 1 cut(s) 386
BsnI GGCC 3 cut(s) 5, 157, 275
Bsp1286I GDGCHC 1 cut(s) 115
Bsp143I GATC 2 cut(s) 130, 205
Bsp19I CCATGG 1 cut(s) 368
BspACI CCGC 1 cut(s) 269
BspANI GGCC 3 cut(s) 5, 157, 275
BspLI GGNNCC 1 cut(s) 374
BspPI GGATC 1 cut(s) 213
BsrDI GCAATG 1 cut(s) 335
BsrI ACTGG 1 cut(s) 449
BssECI CCNNGG 1 cut(s) 368
BssMI GATC 2 cut(s) 130, 205
BssT1I CCWWGG 1 cut(s) 368
Bst2UI CCWGG 1 cut(s) 159
BstC8I GCNNGC 1 cut(s) 273
BstDEI CTNAG 1 cut(s) 261
BstDSI CCRYGG 1 cut(s) 368
BstKTI GATC 2 cut(s) 133, 208
BstMBI GATC 2 cut(s) 130, 205
BstMWI GCNNNNNNNGC 2 cut(s) 257, 281
BstNI CCWGG 1 cut(s) 159
BstSCI CCNGG 1 cut(s) 157
BstX2I RGATCY 1 cut(s) 130
BstXI CCANNNNNNTGG 1 cut(s) 362
BstYI RGATCY 1 cut(s) 130
BsuRI GGCC 3 cut(s) 5, 157, 275
BtgI CCRYGG 1 cut(s) 368
BtgZI GCGATG 1 cut(s) 77
BtsIMutI CAGTG 1 cut(s) 21
Cac8I GCNNGC 1 cut(s) 273
Cfr13I GGNCC 3 cut(s) 19, 365, 373
Csp6I GTAC 1 cut(s) 122
CviAII CATG 3 cut(s) 23, 257, 369
CviJI RGCY 7 cut(s) 5, 93, 157, 275, 299, 382, 406
CviKI_1 RGCY 7 cut(s) 5, 93, 157, 275, 299, 382, 406
CviQI GTAC 1 cut(s) 122
DdeI CTNAG 1 cut(s) 261
DpnI GATC 2 cut(s) 132, 207
DpnII GATC 2 cut(s) 130, 205
EaeI YGGCCR 1 cut(s) 273
Eco130I CCWWGG 1 cut(s) 368
Eco47I GGWCC 3 cut(s) 19, 365, 373
EcoRII CCWGG 1 cut(s) 157
EcoT14I CCWWGG 1 cut(s) 368
ErhI CCWWGG 1 cut(s) 368
FaeI CATG 3 cut(s) 26, 260, 372
FaqI GGGAC 1 cut(s) 386
FatI CATG 3 cut(s) 22, 256, 368
FspBI CTAG 3 cut(s) 128, 285, 466
HaeIII GGCC 3 cut(s) 5, 157, 275
Hin1II CATG 3 cut(s) 26, 260, 372
HincII GTYRAC 1 cut(s) 243
HindII GTYRAC 1 cut(s) 243
HinfI GANTC 4 cut(s) 288, 302, 396, 440
HphI GGTGA 1 cut(s) 438
Hpy166II GTNNAC 2 cut(s) 19, 243
Hpy188III TCNNGA 4 cut(s) 79, 128, 316, 400
Hpy8I GTNNAC 2 cut(s) 19, 243
HpyAV CCTTC 3 cut(s) 21, 147, 156
HpyCH4V TGCA 2 cut(s) 328, 455
HpyF10VI GCNNNNNNNGC 2 cut(s) 257, 281
HpyF3I CTNAG 1 cut(s) 261
Hsp92II CATG 3 cut(s) 26, 260, 372
Kzo9I GATC 2 cut(s) 130, 205
LmnI GCTCC 1 cut(s) 411
LpnPI CCDG 6 cut(s) 144, 171, 257, 307, 385, 462
MaeI CTAG 3 cut(s) 128, 285, 466
MalI GATC 2 cut(s) 132, 207
MboI GATC 2 cut(s) 130, 205
MboII GAAGA 4 cut(s) 53, 304, 378, 435
MflI RGATCY 1 cut(s) 130
MhlI GDGCHC 1 cut(s) 115
MlsI TGGCCA 1 cut(s) 275
MluCI AATT 3 cut(s) 30, 51, 73
MluNI TGGCCA 1 cut(s) 275
MlyI GAGTC 1 cut(s) 282
MnlI CCTC 5 cut(s) 16, 19, 107, 135, 196
Mox20I TGGCCA 1 cut(s) 275
MscI TGGCCA 1 cut(s) 275
MslI CAYNNNNRTG 2 cut(s) 213, 360
Msp20I TGGCCA 1 cut(s) 275
MspA1I CMGCKG 1 cut(s) 271
MspR9I CCNGG 1 cut(s) 159
MvaI CCWGG 1 cut(s) 159
MwoI GCNNNNNNNGC 2 cut(s) 257, 281
NcoI CCATGG 1 cut(s) 368
NdeII GATC 2 cut(s) 130, 205
NlaIII CATG 3 cut(s) 26, 260, 372
NlaIV GGNNCC 1 cut(s) 374
PfeI GAWTC 3 cut(s) 302, 396, 440
PleI GAGTC 1 cut(s) 282
PpsI GAGTC 1 cut(s) 282
PsiI TTATAA 1 cut(s) 236
Psp6I CCWGG 1 cut(s) 157
PspGI CCWGG 1 cut(s) 157
PspN4I GGNNCC 1 cut(s) 374
PspPI GGNCC 3 cut(s) 19, 365, 373
PsuI RGATCY 1 cut(s) 130
RsaI GTAC 1 cut(s) 123
RsaNI GTAC 1 cut(s) 122
RseI CAYNNNNRTG 2 cut(s) 213, 360
Sau3AI GATC 2 cut(s) 130, 205
Sau96I GGNCC 3 cut(s) 19, 365, 373
SchI GAGTC 1 cut(s) 282
ScrFI CCNGG 1 cut(s) 159
SduI GDGCHC 1 cut(s) 115
SetI ASST 6 cut(s) 127, 242, 281, 301, 408, 463
SinI GGWCC 3 cut(s) 19, 365, 373
SmiMI CAYNNNNRTG 2 cut(s) 213, 360
Sse9I AATT 3 cut(s) 30, 51, 73
SsiI CCGC 1 cut(s) 269
SspMI CTAG 3 cut(s) 128, 285, 466
StyD4I CCNGG 1 cut(s) 157
StyI CCWWGG 1 cut(s) 368
TaqI TCGA 2 cut(s) 78, 99
TasI AATT 3 cut(s) 30, 51, 73
TfiI GAWTC 3 cut(s) 302, 396, 440
TscAI CASTG 1 cut(s) 21
TspDTI ATGAA 1 cut(s) 245
TspRI CASTG 1 cut(s) 21
VpaK11BI GGWCC 3 cut(s) 19, 365, 373
XapI RAATTY 1 cut(s) 30
XbaI TCTAGA 1 cut(s) 127
XspI CTAG 3 cut(s) 128, 285, 466
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.