Rroxscaffold_2G00131420

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000147
Physical Location & Seq
Reverse (-)
68020438 .. 68022033
1596 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00131420.1

Sequence Viewer

Length: 486 bp
ATGTTATATGATGATGCAGCTAAGGCCTTGGTTAACAAACTGCCGTATTGTAATTATTTTTGCATTCCTGCTGATGGGCACTCTGGTGGCTTGATTTTGCTTTGGAACACTTCGGTTTATAATATTAATGTGTTAGTCCCTCATCCTCGTTTTATCCATTGTCGTGTTATGCATGTTAGTTCGGGTTCTCAGTGTGATGTTACCTTTGTTTATATGTATCCTCAGAAGCATCGACAATTAGAGCTTTGGAATGAACTTTGTTTGGTGCATACTAATGTGAATGATCCTTGGATTCTTATGGGAGACTTTAACTGTATCTTAAACTTGAGTGAAAAGAGTGGAGGTGTTCGAAGAACTAATAAATACATGATTCAGTTTAGAGACTTTCTTAATAGAGCGGGTCTAGTTTCTCTTCCTTATACTGGTAGTGCTTTTACTTGGACTAATAAACAGCAAGATGGCTCTAGAATTTGTGAGATTAGATAG
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

161

Amino Acids

18.55

Weight (kDa)

8.48

Isoelectric Point (pI)

51.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Exo_endo_phos PF03372 13 - 148 3.5e-07 Endonuclease/Exonuclease/phosphatase family
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: OG0000147)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g10354 FvH4_1g17131 FvH4_2g11611 FvH4_2g33851 FvH4_3g32112 FvH4_3g35052 FvH4_3g44611 FvH4_4g05921 FvH4_4g06411 FvH4_4g06792 FvH4_4g10365 FvH4_4g21422 FvH4_4g22401 FvH4_4g30261 FvH4_5g08843 FvH4_5g14731 FvH4_5g24781 FvH4_5g26231 FvH4_5g31282 FvH4_6g23371 FvH4_6g38511 FvH4_7g01171 FvH4_7g03341 FvH4_7g06171 FvH4_7g32472
prunus_persica Prupe.2G036900_v2.0.a1
pyrus_communis pycom02g19900 pycom03g01520 pycom05g10510 pycom16g23820
rosa_chinensis RchiOBHm_Chr1g0316031 RchiOBHm_Chr1g0342451 RchiOBHm_Chr1g0344541 RchiOBHm_Chr1g0364721 RchiOBHm_Chr2g0133541 RchiOBHm_Chr2g0134511 RchiOBHm_Chr2g0145891 RchiOBHm_Chr2g0163241 RchiOBHm_Chr5g0027201 RchiOBHm_Chr5g0027881 RchiOBHm_Chr5g0047471 RchiOBHm_Chr7g0210901
rosa_laevigata RLG00000011116 RLG00000017964 RLG00000018128 RLG00000018387 RLG00000018829 RLG00000019353 RLG00000028973 RLG00000035870 RLG00000036629
rosa_multiflora Rmu_co8126340.1_g000001 Rmu_co8216750.1_g000001 Rmu_co8222072.1_g000001 Rmu_co8332453.1_g000001 Rmu_co8349913.1_g000001 Rmu_co8405337.1_g000001 Rmu_sc0000041.1_g000012 Rmu_sc0000166.1_g000029 Rmu_sc0000251.1_g000019 Rmu_sc0000271.1_g000028 Rmu_sc0000509.1_g000036 Rmu_sc0000543.1_g000048 Rmu_sc0000808.1_g000003 Rmu_sc0000847.1_g000040 Rmu_sc0000972.1_g000020 Rmu_sc0001260.1_g000001 Rmu_sc0001464.1_g000026 Rmu_sc0001616.1_g000003 Rmu_sc0001669.1_g000001 Rmu_sc0002005.1_g000001 Rmu_sc0002014.1_g000010 Rmu_sc0002082.1_g000033 Rmu_sc0002302.1_g000024 Rmu_sc0002531.1_g000045 Rmu_sc0003276.1_g000002 Rmu_sc0003737.1_g000007 Rmu_sc0003832.1_g000022 Rmu_sc0004080.1_g000011 Rmu_sc0004487.1_g000009 Rmu_sc0004988.1_g000018 Rmu_sc0004988.1_g000019 Rmu_sc0005254.1_g000002 Rmu_sc0005733.1_g000004 Rmu_sc0006413.1_g000006 Rmu_sc0007121.1_g000013 Rmu_sc0007869.1_g000006 Rmu_sc0008035.1_g000015 Rmu_sc0008279.1_g000017 Rmu_sc0008351.1_g000014 Rmu_sc0008957.1_g000007 Rmu_sc0009012.1_g000007 Rmu_sc0010556.1_g000009 Rmu_sc0012889.1_g000003 Rmu_sc0019808.1_g000004 Rmu_sc0028113.1_g000001 Rmu_sc0031202.1_g000001 Rmu_sc0034436.1_g000001 Rmu_sc0034445.1_g000001 Rmu_sc0040044.1_g000001 Rmu_ssc0000062.1_g000032 Rmu_ssc0000372.1_g000018
rosa_roxburghii Rroxscaffold_1G00001520 Rroxscaffold_1G00039990 Rroxscaffold_1G00046370 Rroxscaffold_2G00110140 Rroxscaffold_2G00131420 Rroxscaffold_3G00222390 Rroxscaffold_5G00336040 Rroxscaffold_5G00338000 Rroxscaffold_5G00344030 Rroxscaffold_5G00363460 Rroxscaffold_6G00402000 Rroxscaffold_7G00194940
rosa_rugosa Rorug01G0106500 Rorug01G0111300 Rorug01G0247000 Rorug02G0318100.1 Rorug02G0318200 Rorug02G0459500 Rorug03G0108100 Rorug03G0200500 Rorug03G0232500 Rorug03G0240600 Rorug04G0105300 Rorug04G0256600 Rorug06G0079300 Rorug06G0082700 Rorug06G0095600 Rorug06G0179000 Rorug07G0113500 Rorug07G0271100
rosa_samantha Rh1AG087200 Rh1CG085300 Rh1DG013200 Rh1DG091700 Rh1DG091800 Rh1DG338300 Rh2AG375400 Rh2AG407000 Rh2AG513500 Rh2BG277700 Rh2BG371200 Rh2BG376100 Rh2BG580500 Rh2CG354300 Rh2DG200100 Rh2DG388000 Rh2DG393500 Rh2DG426400 Rh3CG304800 Rh4AG044600 Rh4AG220500 Rh4BG379300 Rh4CG007100 Rh4CG030300 Rh4CG038000 Rh4CG114900 Rh4CG393700 Rh5AG124900 Rh5AG342300 Rh5BG414400 Rh5CG263800 Rh5CG439000 Rh5DG231100 Rh5DG566900 Rh6AG138600 Rh6AG200000 Rh6AG253100 Rh6AG390900 Rh6AG441600 Rh6BG194700 Rh6BG225800 Rh6BG256100 Rh6CG231700 Rh6CG231900 Rh6CG312200 Rh6CG453700 Rh6DG219400 Rh7AG357700 Rh7AG442000 Rh7CG425700 Rh7CG474600 Rh7CG494100 Rh7DG253900 Rh7DG294700 Rh7DG401600 Rh7DG461300
rosa_wichuraiana Rw1G001190 Rw2G047020 Rw4G003490 Rw5G039690 Rw6G010450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 120
AccBSI CCGCTC 1 cut(s) 398
AciI CCGC 1 cut(s) 398
AclWI GGATC 1 cut(s) 278
AcsI RAATTY 1 cut(s) 468
AfiI CCNNNNNNNGG 2 cut(s) 74, 422
AleI CACNNNNGTG 1 cut(s) 84
AluBI AGCT 2 cut(s) 20, 244
AluI AGCT 2 cut(s) 20, 244
Alw26I GTCTC 2 cut(s) 297, 375
AlwI GGATC 1 cut(s) 278
AoxI GGCC 1 cut(s) 24
ApeKI GCWGC 1 cut(s) 17
ApoI RAATTY 1 cut(s) 468
AseI ATTAAT 1 cut(s) 126
AsuII TTCGAA 1 cut(s) 349
BaeGI GKGCMC 1 cut(s) 81
BbvI GCAGC 1 cut(s) 29
BccI CCATC 2 cut(s) 68, 452
BceAI ACGGC 1 cut(s) 28
BciVI GTATCC 1 cut(s) 228
BcoDI GTCTC 2 cut(s) 297, 375
BfaI CTAG 2 cut(s) 404, 465
BfuI GTATCC 1 cut(s) 228
BisI GCNGC 1 cut(s) 18
BlsI GCNGC 1 cut(s) 19
BmsI GCATC 2 cut(s) 4, 238
Bpu10I CCTNAGC 1 cut(s) 21
Bpu14I TTCGAA 1 cut(s) 349
BpuEI CTTGAG 1 cut(s) 346
BsaJI CCNNGG 2 cut(s) 27, 287
Bsc4I CCNNNNNNNGG 2 cut(s) 74, 422
Bse1I ACTGG 1 cut(s) 427
BseDI CCNNGG 2 cut(s) 27, 287
BseGI GGATG 1 cut(s) 142
BseLI CCNNNNNNNGG 2 cut(s) 74, 422
BseMII CTCAG 2 cut(s) 203, 236
BseNI ACTGG 1 cut(s) 427
BseSI GKGCMC 1 cut(s) 81
BseXI GCAGC 1 cut(s) 29
BshFI GGCC 1 cut(s) 26
BslFI GGGAC 1 cut(s) 122
BslI CCNNNNNNNGG 2 cut(s) 74, 422
BsmAI GTCTC 2 cut(s) 297, 375
BsmFI GGGAC 1 cut(s) 122
BsmI GAATGC 1 cut(s) 63
BsnI GGCC 1 cut(s) 26
Bsp119I TTCGAA 1 cut(s) 349
Bsp1286I GDGCHC 1 cut(s) 81
Bsp143I GATC 1 cut(s) 283
BspACI CCGC 1 cut(s) 398
BspANI GGCC 1 cut(s) 26
BspCNI CTCAG 2 cut(s) 202, 235
BspPI GGATC 1 cut(s) 278
BspT104I TTCGAA 1 cut(s) 349
BsrBI CCGCTC 1 cut(s) 398
BsrI ACTGG 1 cut(s) 427
BssECI CCNNGG 2 cut(s) 27, 287
BssMI GATC 1 cut(s) 283
BssT1I CCWWGG 2 cut(s) 27, 287
Bst4CI ACNGT 1 cut(s) 314
Bst6I CTCTTC 1 cut(s) 417
BstBI TTCGAA 1 cut(s) 349
BstDEI CTNAG 3 cut(s) 21, 189, 222
BstF5I GGATG 1 cut(s) 142
BstKTI GATC 1 cut(s) 286
BstMAI GTCTC 2 cut(s) 297, 375
BstMBI GATC 1 cut(s) 283
BstMWI GCNNNNNNNGC 1 cut(s) 23
BstNSI RCATGY 1 cut(s) 176
BstSLI GKGCMC 1 cut(s) 81
BstV1I GCAGC 1 cut(s) 29
BsuI GTATCC 1 cut(s) 228
BsuRI GGCC 1 cut(s) 26
BtsCI GGATG 1 cut(s) 142
BtsIMutI CAGTG 1 cut(s) 197
CviAII CATG 2 cut(s) 173, 367
CviJI RGCY 5 cut(s) 20, 26, 90, 244, 462
CviKI_1 RGCY 5 cut(s) 20, 26, 90, 244, 462
DdeI CTNAG 3 cut(s) 21, 189, 222
DpnI GATC 1 cut(s) 285
DpnII GATC 1 cut(s) 283
Eam1104I CTCTTC 1 cut(s) 417
EarI CTCTTC 1 cut(s) 417
Eco130I CCWWGG 2 cut(s) 27, 287
Eco147I AGGCCT 1 cut(s) 26
EcoT14I CCWWGG 2 cut(s) 27, 287
EcoT22I ATGCAT 1 cut(s) 174
ErhI CCWWGG 2 cut(s) 27, 287
FaeI CATG 2 cut(s) 176, 370
FaqI GGGAC 1 cut(s) 122
FatI CATG 2 cut(s) 172, 366
FauI CCCGC 1 cut(s) 391
Fnu4HI GCNGC 1 cut(s) 18
FokI GGATG 1 cut(s) 129
Fsp4HI GCNGC 1 cut(s) 18
FspBI CTAG 2 cut(s) 404, 465
GluI GCNGC 1 cut(s) 18
HaeIII GGCC 1 cut(s) 26
Hin1II CATG 2 cut(s) 176, 370
HincII GTYRAC 1 cut(s) 34
HindII GTYRAC 1 cut(s) 34
HinfI GANTC 2 cut(s) 292, 370
HpaI GTTAAC 1 cut(s) 34
Hpy166II GTNNAC 1 cut(s) 34
Hpy188I TCNGA 1 cut(s) 225
Hpy188III TCNNGA 1 cut(s) 465
Hpy8I GTNNAC 1 cut(s) 34
HpyCH4III ACNGT 1 cut(s) 314
HpyCH4V TGCA 4 cut(s) 17, 63, 172, 268
HpyF10VI GCNNNNNNNGC 1 cut(s) 23
HpyF3I CTNAG 3 cut(s) 21, 189, 222
Hsp92II CATG 2 cut(s) 176, 370
KspAI GTTAAC 1 cut(s) 34
Kzo9I GATC 1 cut(s) 283
LpnPI CCDG 3 cut(s) 69, 81, 408
Lsp1109I GCAGC 1 cut(s) 29
LweI GCATC 2 cut(s) 4, 238
MaeI CTAG 2 cut(s) 404, 465
MaeIII GTNAC 1 cut(s) 199
MalI GATC 1 cut(s) 285
MbiI CCGCTC 1 cut(s) 398
MboI GATC 1 cut(s) 283
MboII GAAGA 2 cut(s) 363, 404
MhlI GDGCHC 1 cut(s) 81
MluCI AATT 3 cut(s) 52, 236, 468
MnlI CCTC 4 cut(s) 150, 156, 231, 335
Mph1103I ATGCAT 1 cut(s) 174
MseI TTAA 5 cut(s) 33, 126, 309, 320, 390
MslI CAYNNNNRTG 3 cut(s) 84, 162, 273
Mva1269I GAATGC 1 cut(s) 63
MwoI GCNNNNNNNGC 1 cut(s) 23
NdeII GATC 1 cut(s) 283
NlaIII CATG 2 cut(s) 176, 370
NsiI ATGCAT 1 cut(s) 174
NspI RCATGY 1 cut(s) 176
NspV TTCGAA 1 cut(s) 349
OliI CACNNNNGTG 1 cut(s) 84
PceI AGGCCT 1 cut(s) 26
PctI GAATGC 1 cut(s) 63
PfeI GAWTC 2 cut(s) 292, 370
PkrI GCNGC 1 cut(s) 19
PshBI ATTAAT 1 cut(s) 126
PsiI TTATAA 1 cut(s) 120
RseI CAYNNNNRTG 3 cut(s) 84, 162, 273
SaqAI TTAA 5 cut(s) 33, 126, 309, 320, 390
SatI GCNGC 1 cut(s) 18
Sau3AI GATC 1 cut(s) 283
SduI GDGCHC 1 cut(s) 81
SetI ASST 4 cut(s) 22, 206, 246, 346
SfaNI GCATC 2 cut(s) 4, 238
SfuI TTCGAA 1 cut(s) 349
SmiMI CAYNNNNRTG 3 cut(s) 84, 162, 273
SmlI CTYRAG 1 cut(s) 325
SmoI CTYRAG 1 cut(s) 325
Sse9I AATT 3 cut(s) 52, 236, 468
SseBI AGGCCT 1 cut(s) 26
SsiI CCGC 1 cut(s) 398
SspI AATATT 1 cut(s) 124
SspMI CTAG 2 cut(s) 404, 465
StuI AGGCCT 1 cut(s) 26
StyI CCWWGG 2 cut(s) 27, 287
TaaI ACNGT 1 cut(s) 314
TaqI TCGA 2 cut(s) 232, 349
TasI AATT 3 cut(s) 52, 236, 468
TfiI GAWTC 2 cut(s) 292, 370
Tru1I TTAA 5 cut(s) 33, 126, 309, 320, 390
Tru9I TTAA 5 cut(s) 33, 126, 309, 320, 390
TscAI CASTG 1 cut(s) 197
TseI GCWGC 1 cut(s) 17
TspDTI ATGAA 1 cut(s) 267
TspRI CASTG 1 cut(s) 197
VspI ATTAAT 1 cut(s) 126
XapI RAATTY 1 cut(s) 468
XbaI TCTAGA 1 cut(s) 464
XceI RCATGY 1 cut(s) 176
XspI CTAG 2 cut(s) 404, 465
Zsp2I ATGCAT 1 cut(s) 174
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.