Rroxscaffold_3G00248390

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000519
Physical Location & Seq
Reverse (-)
41689530 .. 41693354
3825 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00248390.1

Sequence Viewer

Length: 432 bp
ATGTCTTTATACAAAGAATTGGATGCTTACTCTCCCTCTCTCACTGTATTTTGGGTCGGTGAATTTAGCGGTGCTATGATGAACATAGAACATTCTGCCGAGCATCTGGAGCTACTAGCCACATGGGAGCGGCTTGACCTTACTCAACAGATGCAATTGACACAGGTTACTATTGATACTGACTGCCTTGATGTAGTTCATGATATTACACACAGGGGCTCTGAGCTTTCGGAATTAGGCAGTGTAATTGACGATATACAGGTTGTAATGAGTTGTTTGCAGGGTGTCCAGATCAAATATGCCTCTAGGAACTGCAATGAAGTAGATCACAGACTTATTAAAATTGCTTTCGAGTCTGCTAGAAAGAAGCTTGGTTTAATCAAGCTCCTAGTTGTATCCTTGACAAACTGCCACATGATTGTAACCTGTTGA
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

143

Amino Acids

16.14

Weight (kDa)

5.08

Isoelectric Point (pI)

28.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 27 - 112 2.3e-09 Reverse transcriptase-like
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: OG0000519)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g27751 FvH4_2g10620 FvH4_4g13701 FvH4_4g17370 FvH4_6g49051
pyrus_communis pycom11g18020
rosa_chinensis RchiOBHm_Chr1g0331041 RchiOBHm_Chr2g0088901 RchiOBHm_Chr2g0100641 RchiOBHm_Chr6g0281891
rosa_laevigata RLG00000011791 RLG00000028155 RLG00000035981
rosa_multiflora Rmu_co8368635.1_g000001 Rmu_co8370105.1_g000001 Rmu_sc0000850.1_g000010 Rmu_sc0001374.1_g000060 Rmu_sc0001654.1_g000024 Rmu_sc0001840.1_g000023 Rmu_sc0001900.1_g000032 Rmu_sc0002687.1_g000008 Rmu_sc0003133.1_g000026 Rmu_sc0003252.1_g000002 Rmu_sc0004206.1_g000011 Rmu_sc0004666.1_g000002 Rmu_sc0006255.1_g000004 Rmu_sc0006812.1_g000001 Rmu_sc0007025.1_g000012 Rmu_sc0007767.1_g000020 Rmu_sc0007833.1_g000004 Rmu_sc0007848.1_g000020 Rmu_sc0007883.1_g000010 Rmu_sc0008270.1_g000003 Rmu_sc0012097.1_g000011 Rmu_sc0014445.1_g000002 Rmu_sc0023292.1_g000001
rosa_roxburghii Rroxscaffold_1G00021670 Rroxscaffold_1G00027660 Rroxscaffold_1G00056090 Rroxscaffold_2G00111250 Rroxscaffold_2G00111320 Rroxscaffold_3G00248390 Rroxscaffold_6G00394880 Rroxscaffold_7G00192450
rosa_rugosa Rorug01G0071500 Rorug01G0183900 Rorug01G0242400 Rorug02G0045300 Rorug02G0051000 Rorug02G0061700 Rorug02G0091500 Rorug02G0091600 Rorug02G0091700 Rorug02G0091800 Rorug02G0284700 Rorug02G0335100 Rorug02G0336900 Rorug02G0405500.1 Rorug02G0498300 Rorug03G0173700 Rorug03G0228900 Rorug03G0256300 Rorug04G0014300 Rorug04G0130400 Rorug04G0138100 Rorug04G0138100 Rorug04G0150400.1 Rorug05G0000600 Rorug05G0160400 Rorug05G0165600 Rorug05G0378500 Rorug06G0072000 Rorug06G0107900 Rorug06G0268700 Rorug07G0015500 Rorug07G0266300 Rorug07G0274500
rosa_samantha Rh2AG439400 Rh2AG561100 Rh2DG459400 Rh3AG236100 Rh4BG212500 Rh6AG046300 Rh6BG073000 Rh7DG249100
rosa_wichuraiana Rw2G010910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 130
AciI CCGC 2 cut(s) 69, 130
AcsI RAATTY 1 cut(s) 62
AluBI AGCT 4 cut(s) 112, 226, 370, 385
AluI AGCT 4 cut(s) 112, 226, 370, 385
ApoI RAATTY 1 cut(s) 62
AsuHPI GGTGA 1 cut(s) 71
BanII GRGCYC 1 cut(s) 221
BciVI GTATCC 1 cut(s) 406
BfaI CTAG 4 cut(s) 116, 306, 360, 389
BfuI GTATCC 1 cut(s) 406
BisI GCNGC 1 cut(s) 131
BlsI GCNGC 1 cut(s) 132
BmsI GCATC 3 cut(s) 13, 112, 141
BpmI CTGGAG 1 cut(s) 128
Bse3DI GCAATG 1 cut(s) 322
BseGI GGATG 1 cut(s) 28
BseMI GCAATG 1 cut(s) 322
BseMII CTCAG 1 cut(s) 213
Bsp1286I GDGCHC 1 cut(s) 221
Bsp143I GATC 2 cut(s) 291, 325
BspACI CCGC 2 cut(s) 69, 130
BspCNI CTCAG 1 cut(s) 214
BspHI TCATGA 1 cut(s) 199
BsrBI CCGCTC 1 cut(s) 130
BsrDI GCAATG 1 cut(s) 322
BssMI GATC 2 cut(s) 291, 325
Bst4CI ACNGT 1 cut(s) 46
BstDEI CTNAG 1 cut(s) 222
BstF5I GGATG 1 cut(s) 28
BstKTI GATC 2 cut(s) 294, 328
BstMBI GATC 2 cut(s) 291, 325
BstMWI GCNNNNNNNGC 1 cut(s) 109
BsuI GTATCC 1 cut(s) 406
BtsCI GGATG 1 cut(s) 28
BtsI GCAGTG 1 cut(s) 247
BtsIMutI CAGTG 2 cut(s) 42, 247
CciI TCATGA 1 cut(s) 199
CviAII CATG 3 cut(s) 123, 200, 415
CviJI RGCY 7 cut(s) 112, 119, 133, 219, 226, 370, 385
CviKI_1 RGCY 7 cut(s) 112, 119, 133, 219, 226, 370, 385
DdeI CTNAG 1 cut(s) 222
DpnI GATC 2 cut(s) 293, 327
DpnII GATC 2 cut(s) 291, 325
Eco24I GRGCYC 1 cut(s) 221
EcoT38I GRGCYC 1 cut(s) 221
FaeI CATG 3 cut(s) 126, 203, 418
FaiI YATR 8 cut(s) 10, 77, 86, 124, 201, 257, 300, 416
FatI CATG 3 cut(s) 122, 199, 414
Fnu4HI GCNGC 1 cut(s) 131
FokI GGATG 1 cut(s) 35
FriOI GRGCYC 1 cut(s) 221
Fsp4HI GCNGC 1 cut(s) 131
FspBI CTAG 4 cut(s) 116, 306, 360, 389
GluI GCNGC 1 cut(s) 131
GsuI CTGGAG 1 cut(s) 128
Hin1II CATG 3 cut(s) 126, 203, 418
HindIII AAGCTT 1 cut(s) 368
HinfI GANTC 1 cut(s) 353
HphI GGTGA 1 cut(s) 71
Hpy188I TCNGA 2 cut(s) 223, 232
Hpy188III TCNNGA 3 cut(s) 107, 200, 289
HpyCH4III ACNGT 1 cut(s) 46
HpyCH4V TGCA 3 cut(s) 154, 280, 315
HpyF10VI GCNNNNNNNGC 1 cut(s) 109
HpyF3I CTNAG 1 cut(s) 222
Hsp92II CATG 3 cut(s) 126, 203, 418
Kzo9I GATC 2 cut(s) 291, 325
LmnI GCTCC 3 cut(s) 109, 127, 390
LpnPI CCDG 6 cut(s) 92, 149, 199, 245, 266, 302
LweI GCATC 3 cut(s) 13, 112, 141
MaeI CTAG 4 cut(s) 116, 306, 360, 389
MaeIII GTNAC 2 cut(s) 166, 421
MalI GATC 2 cut(s) 293, 327
MbiI CCGCTC 1 cut(s) 130
MboI GATC 2 cut(s) 291, 325
MfeI CAATTG 1 cut(s) 155
MhlI GDGCHC 1 cut(s) 221
MluCI AATT 6 cut(s) 17, 62, 155, 233, 246, 342
MlyI GAGTC 1 cut(s) 362
MnlI CCTC 2 cut(s) 46, 313
MseI TTAA 2 cut(s) 339, 377
MunI CAATTG 1 cut(s) 155
MwoI GCNNNNNNNGC 1 cut(s) 109
NdeII GATC 2 cut(s) 291, 325
NlaIII CATG 3 cut(s) 126, 203, 418
NmeAIII GCCGAG 1 cut(s) 124
PagI TCATGA 1 cut(s) 199
PkrI GCNGC 1 cut(s) 132
PleI GAGTC 1 cut(s) 361
PpsI GAGTC 1 cut(s) 361
SaqAI TTAA 2 cut(s) 339, 377
SatI GCNGC 1 cut(s) 131
Sau3AI GATC 2 cut(s) 291, 325
SchI GAGTC 1 cut(s) 362
SduI GDGCHC 1 cut(s) 221
SetI ASST 8 cut(s) 114, 141, 168, 228, 264, 372, 387, 428
SfaNI GCATC 3 cut(s) 13, 112, 141
Sse9I AATT 6 cut(s) 17, 62, 155, 233, 246, 342
SsiI CCGC 2 cut(s) 69, 130
SspMI CTAG 4 cut(s) 116, 306, 360, 389
TaaI ACNGT 1 cut(s) 46
TaqI TCGA 1 cut(s) 351
TasI AATT 6 cut(s) 17, 62, 155, 233, 246, 342
TauI GCSGC 1 cut(s) 133
Tru1I TTAA 2 cut(s) 339, 377
Tru9I TTAA 2 cut(s) 339, 377
TscAI CASTG 2 cut(s) 49, 247
TspDTI ATGAA 3 cut(s) 95, 188, 333
TspRI CASTG 2 cut(s) 49, 247
XapI RAATTY 1 cut(s) 62
XspI CTAG 4 cut(s) 116, 306, 360, 389
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.