Rroxscaffold_6G00394880

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000519
Physical Location & Seq
Forward (+)
15744379 .. 15744708
330 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00394880.1

Sequence Viewer

Length: 330 bp
ATGCTTCTAGCAATTAGAGCGGGTCTTGACTTTCTTGTTTCTCTTCAAATACAGCATGTGGTTGTTGAAAATGATAGCACAATGGCTATTGCTGAAGCTATGTGCCGAGACCACACGTTTTTGGCTAATGGTGGACTGATTGATGACATACAGCTTGCCATGCAGTACATCCCAGATCTTCAAATATGTTATCAACCAAGGTCTAGCAATATGGTAGCACATAGACTTGTTGGAATAGGCTTTGAAGCAGTTAATAGTTGTGTATGGATTGGTCTCGCACCTACTTGTATTCGTGATGTTCTTAATCACGACTATCAGTACCTTCATTGA
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_3

Protein Analysis

109

Amino Acids

12.19

Weight (kDa)

5.0

Isoelectric Point (pI)

23.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 3 - 77 3.2e-07 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
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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) 20
AciI CCGC 1 cut(s) 20
AcuI CTGAAG 1 cut(s) 114
AfaI GTAC 2 cut(s) 167, 320
AflIII ACRYGT 1 cut(s) 114
AgsI TTSAA 4 cut(s) 47, 68, 182, 245
AluBI AGCT 2 cut(s) 98, 154
AluI AGCT 2 cut(s) 98, 154
Alw26I GTCTC 2 cut(s) 102, 278
BcoDI GTCTC 2 cut(s) 102, 278
BfaI CTAG 2 cut(s) 8, 204
BglII AGATCT 1 cut(s) 175
BsaI GGTCTC 2 cut(s) 102, 278
BsaJI CCNNGG 1 cut(s) 197
BseDI CCNNGG 1 cut(s) 197
BseGI GGATG 1 cut(s) 168
BsmAI GTCTC 2 cut(s) 102, 278
Bso31I GGTCTC 2 cut(s) 102, 278
Bsp143I GATC 1 cut(s) 175
BspACI CCGC 1 cut(s) 20
BspTNI GGTCTC 2 cut(s) 102, 278
BsrBI CCGCTC 1 cut(s) 20
BssECI CCNNGG 1 cut(s) 197
BssMI GATC 1 cut(s) 175
BssT1I CCWWGG 1 cut(s) 197
Bst6I CTCTTC 1 cut(s) 48
BstC8I GCNNGC 1 cut(s) 156
BstF5I GGATG 1 cut(s) 168
BstKTI GATC 1 cut(s) 178
BstMAI GTCTC 2 cut(s) 102, 278
BstMBI GATC 1 cut(s) 175
BstMWI GCNNNNNNNGC 2 cut(s) 17, 160
BstNSI RCATGY 1 cut(s) 59
BstX2I RGATCY 1 cut(s) 175
BstYI RGATCY 1 cut(s) 175
BtsCI GGATG 1 cut(s) 168
Cac8I GCNNGC 1 cut(s) 156
Csp6I GTAC 2 cut(s) 166, 319
CviAII CATG 2 cut(s) 56, 160
CviJI RGCY 5 cut(s) 86, 98, 125, 154, 240
CviKI_1 RGCY 5 cut(s) 86, 98, 125, 154, 240
CviQI GTAC 2 cut(s) 166, 319
DpnI GATC 1 cut(s) 177
DpnII GATC 1 cut(s) 175
Eam1104I CTCTTC 1 cut(s) 48
EarI CTCTTC 1 cut(s) 48
Eco130I CCWWGG 1 cut(s) 197
Eco31I GGTCTC 2 cut(s) 102, 278
Eco57I CTGAAG 1 cut(s) 114
EcoT14I CCWWGG 1 cut(s) 197
ErhI CCWWGG 1 cut(s) 197
FaeI CATG 2 cut(s) 59, 163
FaiI YATR 8 cut(s) 57, 101, 149, 161, 187, 212, 222, 265
FatI CATG 2 cut(s) 55, 159
FauI CCCGC 1 cut(s) 13
FokI GGATG 1 cut(s) 155
FspBI CTAG 2 cut(s) 8, 204
Hin1II CATG 2 cut(s) 59, 163
Hpy166II GTNNAC 1 cut(s) 134
Hpy188III TCNNGA 3 cut(s) 26, 293, 308
Hpy8I GTNNAC 1 cut(s) 134
HpyCH4IV ACGT 1 cut(s) 116
HpyCH4V TGCA 1 cut(s) 163
HpyF10VI GCNNNNNNNGC 2 cut(s) 17, 160
HpySE526I ACGT 1 cut(s) 116
Hsp92II CATG 2 cut(s) 59, 163
Kzo9I GATC 1 cut(s) 175
LpnPI CCDG 1 cut(s) 186
MaeI CTAG 2 cut(s) 8, 204
MaeII ACGT 1 cut(s) 116
MalI GATC 1 cut(s) 177
MbiI CCGCTC 1 cut(s) 20
MboI GATC 1 cut(s) 175
MboII GAAGA 2 cut(s) 35, 170
MflI RGATCY 1 cut(s) 175
MluCI AATT 1 cut(s) 12
MmeI TCCRAC 1 cut(s) 211
MseI TTAA 2 cut(s) 252, 303
MwoI GCNNNNNNNGC 2 cut(s) 17, 160
NdeII GATC 1 cut(s) 175
NlaIII CATG 2 cut(s) 59, 163
NmeAIII GCCGAG 1 cut(s) 131
NspI RCATGY 1 cut(s) 59
PsuI RGATCY 1 cut(s) 175
RsaI GTAC 2 cut(s) 167, 320
RsaNI GTAC 2 cut(s) 166, 319
SaqAI TTAA 2 cut(s) 252, 303
Sau3AI GATC 1 cut(s) 175
SetI ASST 6 cut(s) 100, 119, 156, 203, 283, 324
Sse9I AATT 1 cut(s) 12
SsiI CCGC 1 cut(s) 20
SspMI CTAG 2 cut(s) 8, 204
StyI CCWWGG 1 cut(s) 197
TaiI ACGT 1 cut(s) 119
TasI AATT 1 cut(s) 12
TatI WGTACW 1 cut(s) 165
Tru1I TTAA 2 cut(s) 252, 303
Tru9I TTAA 2 cut(s) 252, 303
TspDTI ATGAA 1 cut(s) 314
XceI RCATGY 1 cut(s) 59
XspI CTAG 2 cut(s) 8, 204
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.