Rroxscaffold_2G00110080

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000492
Physical Location & Seq
Reverse (-)
34320783 .. 34323446
2664 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00110080.1

Sequence Viewer

Length: 300 bp
ATGGTCAATCAAATTATTGCCACCTCTTTACCTACTACGCCAAGGCCTGATGAGTTTGTCTGGGGTCCAGACGACTCTGGCTTCTTCACCATCAAGAGCGCTTCTTGGCTGCAATCTCAGCATAAGCCTCCCCACTCTCGCGCTGTCTTACTAGCTAAAATTTGGAAACTTTCTATCCCTGCTAAAGTGAAAGTTTTTGCTTGGCTGTTACTCAGGAATCGATTGAAAACACGGGACCGCCTCTCCTTGCATCATCCCAATGTCCCGACTCTCTGCCCTTTCTGTTCCTGTGCTTCATAA
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-RVT

Protein Analysis

99

Amino Acids

11.22

Weight (kDa)

10.15

Isoelectric Point (pI)

36.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 29 - 97 6.2e-12 zinc-binding in reverse transcriptase
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: OG0000492)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG01250
fragaria_vesca FvH4_1g20711 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g28252 FvH4_3g31041 FvH4_4g00611 FvH4_5g15581 FvH4_5g21911 FvH4_5g35851 FvH4_6g24331 FvH4_6g34741
malus_domestica MD07G1291800.v1.1 MD09G1222500.v1.1
prunus_persica Prupe.1G162400_v2.0.a1 Prupe.1G210400_v2.0.a1 Prupe.6G308200_v2.0.a1
pyrus_communis pycom05g02580 pycom12g09210 pycom12g15310 pycom16g09140
rosa_chinensis RchiOBHm_Chr3g0484711 RchiOBHm_Chr4g0393411 RchiOBHm_Chr4g0397521 RchiOBHm_Chr4g0404571 RchiOBHm_Chr4g0418351 RchiOBHm_Chr5g0060311 RchiOBHm_Chr6g0301391 RchiOBHm_Chr7g0229871
rosa_laevigata RLG00000007836 RLG00000025145
rosa_multiflora Rmu_co8327795.1_g000001 Rmu_sc0000469.1_g000005 Rmu_sc0000498.1_g000050 Rmu_sc0000558.1_g000007 Rmu_sc0000693.1_g000082 Rmu_sc0000711.1_g000011 Rmu_sc0000814.1_g000039 Rmu_sc0001366.1_g000005 Rmu_sc0002205.1_g000004 Rmu_sc0002283.1_g000086 Rmu_sc0002406.1_g000011 Rmu_sc0002735.1_g000022 Rmu_sc0003545.1_g000004 Rmu_sc0004406.1_g000009 Rmu_sc0006301.1_g000009 Rmu_sc0006754.1_g000004 Rmu_sc0007324.1_g000010 Rmu_sc0008199.1_g000002 Rmu_sc0008563.1_g000009 Rmu_sc0009777.1_g000007 Rmu_sc0010560.1_g000011 Rmu_sc0011095.1_g000004 Rmu_sc0012101.1_g000004 Rmu_sc0014150.1_g000009 Rmu_sc0020270.1_g000004 Rmu_sc0021327.1_g000001 Rmu_sc0031326.1_g000003 Rmu_ssc0000116.1_g000050 Rmu_ssc0000368.1_g000056
rosa_roxburghii Rroxscaffold_2G00110080 Rroxscaffold_2G00141700 Rroxscaffold_2G00142400
rosa_rugosa Rorug01G0104400 Rorug01G0204500 Rorug02G0225600 Rorug02G0262000.1 Rorug02G0526700 Rorug03G0082000 Rorug03G0102500.1 Rorug04G0106400 Rorug04G0200200 Rorug05G0021900.1 Rorug05G0240000 Rorug05G0326500 Rorug05G0529200 Rorug07G0136100
rosa_samantha Rh1AG352100 Rh6DG494100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 141
AciI CCGC 1 cut(s) 238
AcsI RAATTY 1 cut(s) 159
AfeI AGCGCT 1 cut(s) 100
AgsI TTSAA 1 cut(s) 226
AluBI AGCT 1 cut(s) 155
AluI AGCT 1 cut(s) 155
Aor51HI AGCGCT 1 cut(s) 100
AoxI GGCC 1 cut(s) 44
ApeKI GCWGC 1 cut(s) 109
ApoI RAATTY 1 cut(s) 159
AspLEI GCGC 2 cut(s) 101, 143
AspS9I GGNCC 2 cut(s) 65, 235
AsuHPI GGTGA 1 cut(s) 79
AvaII GGWCC 2 cut(s) 65, 235
BbvI GCAGC 1 cut(s) 96
BccI CCATC 1 cut(s) 98
BfaI CTAG 1 cut(s) 152
BfoI RGCGCY 1 cut(s) 102
BisI GCNGC 1 cut(s) 110
BlsI GCNGC 1 cut(s) 111
Bme18I GGWCC 2 cut(s) 65, 235
BmgT120I GGNCC 2 cut(s) 65, 235
BmiI GGNNCC 2 cut(s) 66, 236
BmsI GCATC 1 cut(s) 259
Bsa29I ATCGAT 1 cut(s) 220
BsaJI CCNNGG 1 cut(s) 41
BsaXI ACNNNNNCTCC 2 cut(s) 227, 257
BseCI ATCGAT 1 cut(s) 220
BseDI CCNNGG 1 cut(s) 41
BseGI GGATG 1 cut(s) 253
BseMII CTCAG 2 cut(s) 131, 226
BseXI GCAGC 1 cut(s) 96
Bsh1236I CGCG 1 cut(s) 141
BshFI GGCC 1 cut(s) 46
BshVI ATCGAT 1 cut(s) 220
BslFI GGGAC 2 cut(s) 248, 248
BsmFI GGGAC 2 cut(s) 248, 248
BsnI GGCC 1 cut(s) 46
BspACI CCGC 1 cut(s) 238
BspANI GGCC 1 cut(s) 46
BspCNI CTCAG 2 cut(s) 130, 225
BspDI ATCGAT 1 cut(s) 220
BspFNI CGCG 1 cut(s) 141
BspLI GGNNCC 2 cut(s) 66, 236
BssECI CCNNGG 1 cut(s) 41
BssT1I CCWWGG 1 cut(s) 41
BstDEI CTNAG 2 cut(s) 117, 212
BstF5I GGATG 1 cut(s) 253
BstFNI CGCG 1 cut(s) 141
BstH2I RGCGCY 1 cut(s) 102
BstHHI GCGC 2 cut(s) 101, 143
BstMWI GCNNNNNNNGC 1 cut(s) 118
BstUI CGCG 1 cut(s) 141
BstV1I GCAGC 1 cut(s) 96
Bsu15I ATCGAT 1 cut(s) 220
BsuRI GGCC 1 cut(s) 46
BsuTUI ATCGAT 1 cut(s) 220
BtsCI GGATG 1 cut(s) 253
CfoI GCGC 2 cut(s) 101, 143
Cfr13I GGNCC 2 cut(s) 65, 235
ClaI ATCGAT 1 cut(s) 220
CviJI RGCY 6 cut(s) 46, 81, 109, 127, 155, 205
CviKI_1 RGCY 6 cut(s) 46, 81, 109, 127, 155, 205
DdeI CTNAG 2 cut(s) 117, 212
Eco130I CCWWGG 1 cut(s) 41
Eco147I AGGCCT 1 cut(s) 46
Eco47I GGWCC 2 cut(s) 65, 235
Eco47III AGCGCT 1 cut(s) 100
EcoT14I CCWWGG 1 cut(s) 41
ErhI CCWWGG 1 cut(s) 41
FaiI YATR 2 cut(s) 123, 298
FaqI GGGAC 2 cut(s) 248, 248
Fnu4HI GCNGC 1 cut(s) 110
FokI GGATG 1 cut(s) 240
Fsp4HI GCNGC 1 cut(s) 110
FspBI CTAG 1 cut(s) 152
GlaI GCGC 2 cut(s) 100, 142
GluI GCNGC 1 cut(s) 110
HaeII RGCGCY 1 cut(s) 102
HaeIII GGCC 1 cut(s) 46
HhaI GCGC 2 cut(s) 101, 143
Hin6I GCGC 2 cut(s) 99, 141
HinP1I GCGC 2 cut(s) 99, 141
HinfI GANTC 3 cut(s) 74, 217, 268
HphI GGTGA 1 cut(s) 79
Hpy188III TCNNGA 4 cut(s) 68, 94, 214, 265
HpyCH4V TGCA 2 cut(s) 112, 250
HpyF10VI GCNNNNNNNGC 1 cut(s) 118
HpyF3I CTNAG 2 cut(s) 117, 212
HspAI GCGC 2 cut(s) 99, 141
LpnPI CCDG 6 cut(s) 46, 60, 63, 81, 192, 199
Lsp1109I GCAGC 1 cut(s) 96
LweI GCATC 1 cut(s) 259
MaeI CTAG 1 cut(s) 152
MaeIII GTNAC 1 cut(s) 207
MboII GAAGA 1 cut(s) 76
MluCI AATT 2 cut(s) 12, 159
MlyI GAGTC 2 cut(s) 68, 262
MnlI CCTC 3 cut(s) 34, 138, 251
MslI CAYNNNNRTG 1 cut(s) 258
MvnI CGCG 1 cut(s) 141
MwoI GCNNNNNNNGC 1 cut(s) 118
NlaIV GGNNCC 2 cut(s) 66, 236
PceI AGGCCT 1 cut(s) 46
PfeI GAWTC 1 cut(s) 217
PkrI GCNGC 1 cut(s) 111
PleI GAGTC 2 cut(s) 68, 262
PpsI GAGTC 2 cut(s) 68, 262
PspN4I GGNNCC 2 cut(s) 66, 236
PspPI GGNCC 2 cut(s) 65, 235
RseI CAYNNNNRTG 1 cut(s) 258
SatI GCNGC 1 cut(s) 110
Sau96I GGNCC 2 cut(s) 65, 235
SchI GAGTC 2 cut(s) 68, 262
SetI ASST 3 cut(s) 26, 34, 157
SfaNI GCATC 1 cut(s) 259
SinI GGWCC 2 cut(s) 65, 235
SmiMI CAYNNNNRTG 1 cut(s) 258
Sse9I AATT 2 cut(s) 12, 159
SseBI AGGCCT 1 cut(s) 46
SsiI CCGC 1 cut(s) 238
SspMI CTAG 1 cut(s) 152
StuI AGGCCT 1 cut(s) 46
StyI CCWWGG 1 cut(s) 41
TaqI TCGA 1 cut(s) 220
TasI AATT 2 cut(s) 12, 159
TfiI GAWTC 1 cut(s) 217
TseI GCWGC 1 cut(s) 109
TspDTI ATGAA 1 cut(s) 285
VpaK11BI GGWCC 2 cut(s) 65, 235
XapI RAATTY 1 cut(s) 159
XspI CTAG 1 cut(s) 152
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.