Rroxscaffold_6G00401420

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000072
Physical Location & Seq
Reverse (-)
23766369 .. 23766638
270 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00401420.1

Sequence Viewer

Length: 270 bp
ATGTGTTTAACTGAAGGGTTCAAGCAATTAGAAGTGGAGAGTGATTCAATCACAGTTGTCTCTGCGCTGAGTAAGAAAGAACTAGATCTCAGTGTGGAGGTAGGAGTTTTTGATGATATCAGATTCTTGGCTTCTAGTTTTGATGTAGTCCTGTGGAAGAAAGCTCATAGAAATGGTAATAATGCAGTGGATCTCTTGGCTAAACAAGCTCTAGTTGCTGCAGAAGACTGTTTTTGGAAGGAGGCAGGGCGACCATATATGGCTGGCTGA
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
No domains found.

Protein Analysis

89

Amino Acids

9.82

Weight (kDa)

4.84

Isoelectric Point (pI)

35.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 2 - 70 1.1e-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: OG0000072)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G38920
fragaria_vesca FvH4_1g15990 FvH4_1g20960 FvH4_1g24221 FvH4_1g24420 FvH4_2g01203 FvH4_2g08721 FvH4_2g09751 FvH4_2g13111 FvH4_2g14361 FvH4_2g19531 FvH4_2g20801 FvH4_2g36230 FvH4_3g07262 FvH4_3g14231 FvH4_3g21341 FvH4_3g23591 FvH4_3g27972 FvH4_3g28692 FvH4_4g05541 FvH4_4g07351 FvH4_4g07410 FvH4_4g13062 FvH4_4g15487 FvH4_4g15790 FvH4_4g17671 FvH4_4g26583 FvH4_4g28900 FvH4_4g31671 FvH4_5g25821 FvH4_5g31851 FvH4_5g38981 FvH4_6g29902 FvH4_7g03001 FvH4_7g10254
malus_domestica MD03G1147200.v1.1 MD15G1309200.v1.1 MD17G1150900.v1.1
prunus_persica Prupe.1G205500_v2.0.a1 Prupe.2G069500_v2.0.a1 Prupe.2G082600_v2.0.a1 Prupe.3G063400_v2.0.a1 Prupe.3G126800_v2.0.a1 Prupe.3G133900_v2.0.a1 Prupe.3G283300_v2.0.a1 Prupe.4G143500_v2.0.a1 Prupe.4G186900_v2.0.a1 Prupe.6G204400_v2.0.a1 Prupe.6G272800_v2.0.a1 Prupe.7G035500_v2.0.a1 Prupe.7G038400_v2.0.a1 Prupe.7G049300_v2.0.a1 Prupe.7G076800_v2.0.a1 Prupe.8G099500_v2.0.a1 Prupe.8G101300_v2.0.a1
pyrus_communis pycom03g10120 pycom04g16660 pycom08g19920 pycom11g21950 pycom14g01510 pycom14g06470
rosa_chinensis RchiOBHm_Chr1g0323941 RchiOBHm_Chr1g0325331 RchiOBHm_Chr1g0339311 RchiOBHm_Chr1g0345991 RchiOBHm_Chr1g0354891 RchiOBHm_Chr2g0118041 RchiOBHm_Chr3g0468731 RchiOBHm_Chr3g0488841 RchiOBHm_Chr4g0388981 RchiOBHm_Chr4g0398671 RchiOBHm_Chr4g0400431 RchiOBHm_Chr4g0402201 RchiOBHm_Chr4g0430711 RchiOBHm_Chr4g0432871 RchiOBHm_Chr4g0437761 RchiOBHm_Chr5g0066251 RchiOBHm_Chr5g0078071 RchiOBHm_Chr6g0279961 RchiOBHm_Chr6g0289791 RchiOBHm_Chr7g0187741 RchiOBHm_Chr7g0208481
rosa_laevigata RLG00000002376 RLG00000011026 RLG00000011403 RLG00000012646 RLG00000014435 RLG00000014869 RLG00000015450 RLG00000015464 RLG00000016451 RLG00000017121 RLG00000018788 RLG00000018819 RLG00000021054 RLG00000028424 RLG00000030071 RLG00000031242 RLG00000031840 RLG00000031955 RLG00000033437 RLG00000033571 RLG00000034722 RLG00000035706 RLG00000035774 RLG00000036341 RLG00000036639
rosa_multiflora Rmu_co8023178.1_g000001 Rmu_co8119834.1_g000001 Rmu_co8158796.1_g000001 Rmu_co8339863.1_g000001 Rmu_co8512857.1_g000001 Rmu_sc0000174.1_g000006 Rmu_sc0000206.1_g000002 Rmu_sc0000266.1_g000002 Rmu_sc0000361.1_g000026 Rmu_sc0000493.1_g000035 Rmu_sc0000600.1_g000057 Rmu_sc0000796.1_g000012 Rmu_sc0000882.1_g000045 Rmu_sc0000913.1_g000014 Rmu_sc0000946.1_g000041 Rmu_sc0000966.1_g000013 Rmu_sc0001018.1_g000024 Rmu_sc0001018.1_g000025 Rmu_sc0001159.1_g000043 Rmu_sc0001287.1_g000024 Rmu_sc0001291.1_g000041 Rmu_sc0001380.1_g000028 Rmu_sc0001767.1_g000008 Rmu_sc0001802.1_g000010 Rmu_sc0001824.1_g000009 Rmu_sc0001850.1_g000024 Rmu_sc0002105.1_g000011 Rmu_sc0002129.1_g000032 Rmu_sc0002845.1_g000002 Rmu_sc0003054.1_g000001 Rmu_sc0003063.1_g000035 Rmu_sc0003131.1_g000034 Rmu_sc0003303.1_g000022 Rmu_sc0004347.1_g000013 Rmu_sc0004521.1_g000015 Rmu_sc0004618.1_g000056 Rmu_sc0004757.1_g000013 Rmu_sc0005056.1_g000003 Rmu_sc0005354.1_g000011 Rmu_sc0005385.1_g000018 Rmu_sc0005928.1_g000007 Rmu_sc0005933.1_g000003 Rmu_sc0006223.1_g000044 Rmu_sc0006314.1_g000007 Rmu_sc0006399.1_g000008 Rmu_sc0006847.1_g000001 Rmu_sc0007698.1_g000004 Rmu_sc0008509.1_g000023 Rmu_sc0008804.1_g000010 Rmu_sc0008818.1_g000001 Rmu_sc0009489.1_g000001 Rmu_sc0010407.1_g000001 Rmu_sc0010532.1_g000006 Rmu_sc0010988.1_g000001 Rmu_sc0012343.1_g000003 Rmu_sc0012922.1_g000001 Rmu_sc0013078.1_g000009 Rmu_sc0013419.1_g000005 Rmu_sc0013453.1_g000002 Rmu_sc0017867.1_g000004 Rmu_sc0023349.1_g000001 Rmu_sc0025859.1_g000001 Rmu_sc0028153.1_g000002 Rmu_sc0029528.1_g000001 Rmu_sc0030464.1_g000001 Rmu_sc0035933.1_g000001 Rmu_sc0038973.1_g000001 Rmu_sc0040007.1_g000003 Rmu_ssc0000053.1_g000007 Rmu_ssc0000128.1_g000001
rosa_roxburghii Rroxscaffold_175G00431900 Rroxscaffold_1G00018370 Rroxscaffold_1G00035430 Rroxscaffold_1G00040660 Rroxscaffold_1G00048390 Rroxscaffold_1G00048520 Rroxscaffold_2G00078960 Rroxscaffold_2G00086820 Rroxscaffold_2G00112940 Rroxscaffold_2G00118350 Rroxscaffold_2G00139200 Rroxscaffold_2G00141770 Rroxscaffold_3G00221980 Rroxscaffold_3G00227730 Rroxscaffold_3G00241010 Rroxscaffold_3G00242660 Rroxscaffold_4G00305460 Rroxscaffold_4G00324810 Rroxscaffold_4G00326090 Rroxscaffold_5G00334080 Rroxscaffold_5G00335320 Rroxscaffold_5G00344260 Rroxscaffold_5G00348290 Rroxscaffold_5G00381300 Rroxscaffold_6G00392050 Rroxscaffold_6G00401420 Rroxscaffold_6G00405930 Rroxscaffold_6G00418270 Rroxscaffold_6G00421490 Rroxscaffold_7G00167580 Rroxscaffold_7G00172500 Rroxscaffold_7G00173600 Rroxscaffold_7G00185890 Rroxscaffold_7G00192320 Rroxscaffold_7G00197110 Rroxscaffold_7G00209660 Rroxscaffold_7G00211150 Rroxscaffold_7G00216650
rosa_rugosa Rorug01G0040600 Rorug01G0063600 Rorug01G0071700 Rorug01G0184500 Rorug01G0302600 Rorug01G0322600 Rorug01G0403900 Rorug02G0026600 Rorug02G0026700 Rorug02G0074300 Rorug02G0074400 Rorug02G0074500.1 Rorug02G0326900 Rorug02G0351800 Rorug02G0378400 Rorug02G0473800 Rorug03G0023400 Rorug03G0073100 Rorug03G0074900 Rorug03G0118200 Rorug03G0129800 Rorug03G0150100 Rorug03G0178300 Rorug03G0192600 Rorug03G0201700 Rorug03G0231800 Rorug03G0271300 Rorug03G0360000.1 Rorug04G0026900 Rorug04G0036300 Rorug04G0081200 Rorug04G0129600 Rorug04G0153600 Rorug04G0169000 Rorug04G0211000 Rorug04G0211000 Rorug04G0440300 Rorug05G0008100 Rorug05G0083200 Rorug05G0137000 Rorug05G0251200 Rorug05G0411900 Rorug05G0422200 Rorug05G0472700 Rorug06G0026700 Rorug06G0062900 Rorug06G0063000 Rorug06G0069800 Rorug06G0081100 Rorug06G0093500 Rorug06G0095300 Rorug06G0241900 Rorug06G0480400 Rorug07G0043700 Rorug07G0113100 Rorug07G0211300.1 Rorug07G0267700 Rorug07G0281900 Rorug07G0307100
rosa_samantha Rh1AG057800 Rh1AG058600 Rh1AG167200 Rh1AG312300 Rh1AG364500 Rh1BG048900 Rh1BG120100 Rh1BG275500 Rh1BG351000 Rh1CG060500 Rh1CG060600 Rh1DG064500 Rh2AG116500 Rh2BG281500 Rh2BG454900 Rh2BG458000 Rh2BG661700 Rh2CG270000 Rh2DG031300 Rh2DG465000 Rh3DG087300 Rh4AG000500 Rh4AG015500 Rh4AG212800 Rh4BG073500 Rh4BG077400 Rh4BG096800 Rh4BG390300 Rh4CG238100 Rh4CG325900 Rh5AG150200 Rh5CG253600 Rh5DG148600 Rh6AG397200 Rh6BG405900 Rh7BG108000 Rh7BG438000 Rh7CG128200 Rh7CG286000 Rh7CG372000 Rh7CG454900
rosa_wichuraiana Rw1G016000 Rw2G002480 Rw3G029030 Rw4G012010 Rw4G019280 Rw4G020280 Rw4G026190 Rw7G009640 Rw7G020950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 198
AcuI CTGAAG 1 cut(s) 33
AgsI TTSAA 2 cut(s) 22, 48
AluBI AGCT 2 cut(s) 164, 209
AluI AGCT 2 cut(s) 164, 209
Alw26I GTCTC 1 cut(s) 64
AlwI GGATC 1 cut(s) 198
ApeKI GCWGC 1 cut(s) 218
AspLEI GCGC 1 cut(s) 67
BbsI GAAGAC 1 cut(s) 231
BbvI GCAGC 1 cut(s) 205
BcoDI GTCTC 1 cut(s) 64
BfaI CTAG 3 cut(s) 83, 135, 212
BfmI CTRYAG 1 cut(s) 219
BglII AGATCT 1 cut(s) 85
BisI GCNGC 1 cut(s) 219
BlsI GCNGC 1 cut(s) 220
BpiI GAAGAC 1 cut(s) 231
BseMII CTCAG 2 cut(s) 59, 103
BseXI GCAGC 1 cut(s) 205
BsmAI GTCTC 1 cut(s) 64
Bsp143I GATC 2 cut(s) 85, 190
BspCNI CTCAG 2 cut(s) 60, 102
BspMAI CTGCAG 1 cut(s) 223
BspPI GGATC 1 cut(s) 198
BssMI GATC 2 cut(s) 85, 190
Bst4CI ACNGT 2 cut(s) 55, 230
BstC8I GCNNGC 1 cut(s) 265
BstDEI CTNAG 2 cut(s) 68, 89
BstHHI GCGC 1 cut(s) 67
BstKTI GATC 2 cut(s) 88, 193
BstMAI GTCTC 1 cut(s) 64
BstMBI GATC 2 cut(s) 85, 190
BstMWI GCNNNNNNNGC 2 cut(s) 206, 215
BstSFI CTRYAG 1 cut(s) 219
BstV1I GCAGC 1 cut(s) 205
BstV2I GAAGAC 1 cut(s) 231
BstX2I RGATCY 2 cut(s) 85, 190
BstYI RGATCY 2 cut(s) 85, 190
BtsI GCAGTG 1 cut(s) 192
BtsIMutI CAGTG 2 cut(s) 97, 192
Cac8I GCNNGC 1 cut(s) 265
CfoI GCGC 1 cut(s) 67
CviJI RGCY 6 cut(s) 131, 164, 200, 209, 263, 267
CviKI_1 RGCY 6 cut(s) 131, 164, 200, 209, 263, 267
DdeI CTNAG 2 cut(s) 68, 89
DpnI GATC 2 cut(s) 87, 192
DpnII GATC 2 cut(s) 85, 190
Eco32I GATATC 1 cut(s) 118
Eco57I CTGAAG 1 cut(s) 33
EcoRV GATATC 1 cut(s) 118
FaiI YATR 4 cut(s) 168, 256, 258, 260
Fnu4HI GCNGC 1 cut(s) 219
Fsp4HI GCNGC 1 cut(s) 219
FspBI CTAG 3 cut(s) 83, 135, 212
GlaI GCGC 1 cut(s) 66
GluI GCNGC 1 cut(s) 219
HhaI GCGC 1 cut(s) 67
Hin6I GCGC 1 cut(s) 65
HinP1I GCGC 1 cut(s) 65
HinfI GANTC 2 cut(s) 44, 123
Hpy188I TCNGA 1 cut(s) 122
HpyAV CCTTC 2 cut(s) 8, 232
HpyCH4III ACNGT 2 cut(s) 55, 230
HpyCH4V TGCA 2 cut(s) 185, 221
HpyF10VI GCNNNNNNNGC 2 cut(s) 206, 215
HpyF3I CTNAG 2 cut(s) 68, 89
HspAI GCGC 1 cut(s) 65
Kzo9I GATC 2 cut(s) 85, 190
LpnPI CCDG 3 cut(s) 164, 231, 249
Lsp1109I GCAGC 1 cut(s) 205
MaeI CTAG 3 cut(s) 83, 135, 212
MalI GATC 2 cut(s) 87, 192
MboI GATC 2 cut(s) 85, 190
MboII GAAGA 2 cut(s) 169, 236
MflI RGATCY 2 cut(s) 85, 190
MluCI AATT 1 cut(s) 26
MnlI CCTC 2 cut(s) 91, 235
MseI TTAA 1 cut(s) 8
MslI CAYNNNNRTG 1 cut(s) 171
MwoI GCNNNNNNNGC 2 cut(s) 206, 215
NdeII GATC 2 cut(s) 85, 190
PfeI GAWTC 2 cut(s) 44, 123
PkrI GCNGC 1 cut(s) 220
PstI CTGCAG 1 cut(s) 223
PsuI RGATCY 2 cut(s) 85, 190
RseI CAYNNNNRTG 1 cut(s) 171
SaqAI TTAA 1 cut(s) 8
SatI GCNGC 1 cut(s) 219
Sau3AI GATC 2 cut(s) 85, 190
SetI ASST 3 cut(s) 102, 166, 211
SfcI CTRYAG 1 cut(s) 219
SgeI CNNG 9 cut(s) 34, 95, 139, 147, 163, 208, 218, 224, 258
SmiMI CAYNNNNRTG 1 cut(s) 171
Sse9I AATT 1 cut(s) 26
SspMI CTAG 3 cut(s) 83, 135, 212
TaaI ACNGT 2 cut(s) 55, 230
TasI AATT 1 cut(s) 26
TfiI GAWTC 2 cut(s) 44, 123
Tru1I TTAA 1 cut(s) 8
Tru9I TTAA 1 cut(s) 8
TscAI CASTG 2 cut(s) 97, 192
TseI GCWGC 1 cut(s) 218
TspRI CASTG 2 cut(s) 97, 192
XspI CTAG 3 cut(s) 83, 135, 212
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.