Rroxscaffold_5G00341720

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000842
Physical Location & Seq
Forward (+)
10292036 .. 10296379
4344 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00341720.1

Sequence Viewer

Length: 297 bp
ATGAGTCAGCTGAGGCCTATAAGTTTGTGTAATGTATTGTACAAAATTGGATATAAGGTTTTAGCTAATCGATTAAAGCCCTTTCTTGAGGGTATCATCTCTCCTTTTCAGAGTGCCTTCGTCCTTGGTAGACTTATTTCAGACAACTCTCTTGCTGCATTTAAGATTTCACACTTTCTAAAGAGAAGAAGAAGAGGTAACTTTGGCTTTGGGGCCTTGAAATTGGACATGAGTAAAGCTTATGATCTGGTAGAATGGAGTTTCCTGGAGTTTGTTTTGCTTGGGTTTTTGCCATAG
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_1 RVT_3 zf-RVT

Protein Analysis

98

Amino Acids

11.2

Weight (kDa)

10.17

Isoelectric Point (pI)

46.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 2 - 89 4.1e-10 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 130
AfaI GTAC 1 cut(s) 41
AgsI TTSAA 1 cut(s) 220
AjnI CCWGG 1 cut(s) 264
AluBI AGCT 3 cut(s) 10, 65, 239
AluI AGCT 3 cut(s) 10, 65, 239
AoxI GGCC 2 cut(s) 14, 213
ApeKI GCWGC 1 cut(s) 155
AspS9I GGNCC 1 cut(s) 213
BbvCI CCTCAGC 1 cut(s) 11
BbvI GCAGC 1 cut(s) 142
BciT130I CCWGG 1 cut(s) 266
BisI GCNGC 1 cut(s) 156
BlsI GCNGC 1 cut(s) 157
Bme1390I CCNGG 1 cut(s) 266
BmgT120I GGNCC 1 cut(s) 213
BmiI GGNNCC 1 cut(s) 214
BmrFI CCNGG 1 cut(s) 266
BpmI CTGGAG 1 cut(s) 287
Bpu10I CCTNAGC 1 cut(s) 11
BpuEI CTTGAG 1 cut(s) 107
Bsa29I ATCGAT 1 cut(s) 70
BsaJI CCNNGG 1 cut(s) 124
BseBI CCWGG 1 cut(s) 266
BseCI ATCGAT 1 cut(s) 70
BseDI CCNNGG 1 cut(s) 124
BseXI GCAGC 1 cut(s) 142
BshFI GGCC 2 cut(s) 16, 215
BshVI ATCGAT 1 cut(s) 70
BsnI GGCC 2 cut(s) 16, 215
Bsp1407I TGTACA 1 cut(s) 39
Bsp143I GATC 1 cut(s) 244
BspANI GGCC 2 cut(s) 16, 215
BspDI ATCGAT 1 cut(s) 70
BspLI GGNNCC 1 cut(s) 214
BsrGI TGTACA 1 cut(s) 39
BssECI CCNNGG 1 cut(s) 124
BssMI GATC 1 cut(s) 244
BssT1I CCWWGG 1 cut(s) 124
Bst2UI CCWGG 1 cut(s) 266
Bst6I CTCTTC 1 cut(s) 187
BstAUI TGTACA 1 cut(s) 39
BstDEI CTNAG 1 cut(s) 11
BstKTI GATC 1 cut(s) 247
BstMBI GATC 1 cut(s) 244
BstNI CCWGG 1 cut(s) 266
BstSCI CCNGG 1 cut(s) 264
BstV1I GCAGC 1 cut(s) 142
Bsu15I ATCGAT 1 cut(s) 70
BsuRI GGCC 2 cut(s) 16, 215
BsuTUI ATCGAT 1 cut(s) 70
Cfr13I GGNCC 1 cut(s) 213
ClaI ATCGAT 1 cut(s) 70
Csp6I GTAC 1 cut(s) 40
CviAII CATG 1 cut(s) 229
CviJI RGCY 7 cut(s) 10, 16, 65, 79, 207, 215, 239
CviKI_1 RGCY 7 cut(s) 10, 16, 65, 79, 207, 215, 239
CviQI GTAC 1 cut(s) 40
DdeI CTNAG 1 cut(s) 11
DpnI GATC 1 cut(s) 246
DpnII GATC 1 cut(s) 244
Eam1104I CTCTTC 1 cut(s) 187
EarI CTCTTC 1 cut(s) 187
Eco130I CCWWGG 1 cut(s) 124
Eco147I AGGCCT 1 cut(s) 16
EcoO109I RGGNCCY 1 cut(s) 213
EcoRII CCWGG 1 cut(s) 264
EcoT14I CCWWGG 1 cut(s) 124
ErhI CCWWGG 1 cut(s) 124
FaeI CATG 1 cut(s) 232
FaiI YATR 5 cut(s) 20, 54, 230, 243, 295
FatI CATG 1 cut(s) 228
FblI GTMKAC 1 cut(s) 130
Fnu4HI GCNGC 1 cut(s) 156
Fsp4HI GCNGC 1 cut(s) 156
GluI GCNGC 1 cut(s) 156
GsuI CTGGAG 1 cut(s) 287
HaeIII GGCC 2 cut(s) 16, 215
Hin1II CATG 1 cut(s) 232
HindIII AAGCTT 1 cut(s) 237
HinfI GANTC 1 cut(s) 4
Hpy166II GTNNAC 1 cut(s) 131
Hpy188I TCNGA 2 cut(s) 111, 142
Hpy188III TCNNGA 1 cut(s) 86
Hpy8I GTNNAC 1 cut(s) 131
HpyAV CCTTC 1 cut(s) 127
HpyCH4V TGCA 1 cut(s) 158
HpyF3I CTNAG 1 cut(s) 11
Hsp92II CATG 1 cut(s) 232
Kzo9I GATC 1 cut(s) 244
LpnPI CCDG 3 cut(s) 233, 251, 278
Lsp1109I GCAGC 1 cut(s) 142
MaeIII GTNAC 1 cut(s) 197
MalI GATC 1 cut(s) 246
MboI GATC 1 cut(s) 244
MboII GAAGA 3 cut(s) 198, 201, 204
MluCI AATT 2 cut(s) 45, 221
MlyI GAGTC 1 cut(s) 13
MnlI CCTC 3 cut(s) 6, 82, 188
MseI TTAA 2 cut(s) 74, 162
MspA1I CMGCKG 1 cut(s) 10
MspR9I CCNGG 1 cut(s) 266
MvaI CCWGG 1 cut(s) 266
NdeII GATC 1 cut(s) 244
NlaIII CATG 1 cut(s) 232
NlaIV GGNNCC 1 cut(s) 214
PceI AGGCCT 1 cut(s) 16
PfoI TCCNGGA 1 cut(s) 264
PkrI GCNGC 1 cut(s) 157
PleI GAGTC 1 cut(s) 12
PpsI GAGTC 1 cut(s) 12
Psp6I CCWGG 1 cut(s) 264
PspGI CCWGG 1 cut(s) 264
PspN4I GGNNCC 1 cut(s) 214
PspPI GGNCC 1 cut(s) 213
PvuII CAGCTG 1 cut(s) 10
RsaI GTAC 1 cut(s) 41
RsaNI GTAC 1 cut(s) 40
SaqAI TTAA 2 cut(s) 74, 162
SatI GCNGC 1 cut(s) 156
Sau3AI GATC 1 cut(s) 244
Sau96I GGNCC 1 cut(s) 213
SchI GAGTC 1 cut(s) 13
ScrFI CCNGG 1 cut(s) 266
SetI ASST 5 cut(s) 12, 60, 67, 199, 241
SgeI CNNG 9 cut(s) 98, 137, 164, 229, 241, 260, 277, 278, 293
SmlI CTYRAG 1 cut(s) 86
SmoI CTYRAG 1 cut(s) 86
Sse9I AATT 2 cut(s) 45, 221
SseBI AGGCCT 1 cut(s) 16
StuI AGGCCT 1 cut(s) 16
StyD4I CCNGG 1 cut(s) 264
StyI CCWWGG 1 cut(s) 124
TaqI TCGA 1 cut(s) 70
TasI AATT 2 cut(s) 45, 221
TatI WGTACW 1 cut(s) 39
Tru1I TTAA 2 cut(s) 74, 162
Tru9I TTAA 2 cut(s) 74, 162
TseI GCWGC 1 cut(s) 155
XmiI GTMKAC 1 cut(s) 130
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.