Rroxscaffold_7G00167580

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000072
Physical Location & Seq
Forward (+)
8669271 .. 8670186
916 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00167580.1

Sequence Viewer

Length: 588 bp
ATGGTAGGTGTTTGGGGTGTAGATGGGGTGATGAAACGGTGTTACATGCTTTGTGGGACATGTGGCAAGGATTTAGAGTGGTTTGGGGTGGTGGCTTGGCAGCTTTGGCATGAAAGGAATAGGGGAAATCATGGCAGTAATGTGCAGCAAGGTGATTGCATTGGGCAGTTGGCTGGGGTAAGGCGTGATGTGCAGTCAAATGTTCCTAGTGGGCAAGGAAGTAGGCGCTCTGGTAGTAGACACGAGAGATGGGAGAAGCCTAGGATGGGCTCAGTAAAACTAAATATTGATGGTGCCTTGAACATGAGCCAGGCATGCTTCACTAATTTGGAGATCGAAGGAGACGCACAGAATGTGTTTGTGGCATTAAATTCCAACCTTGAAGACCTCAGTCCAGATGGAGCTCTAATTGATGAAGCTAAGGTACTGTTGAGTTTGTTTCAGTCTTGTAGTTGGGGTTATATCCCTAGAAAGTGTAATAAAGCTGCCCATAGTGTAGCAAGGGCAGCTCTTTCCATTCCTTTTCCTACATATTGGTGGCAAATGGCTCTGGAGTGGCCCTTACCAATCCTAGTTGATGAAGTCTAG
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 zf-RVT

Protein Analysis

195

Amino Acids

21.71

Weight (kDa)

6.41

Isoelectric Point (pI)

47.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 105 - 170 6e-10 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AccB1I GGYRCC 1 cut(s) 293
AccI GTMKAC 1 cut(s) 238
AcsI RAATTY 1 cut(s) 370
AfaI GTAC 1 cut(s) 426
AfiI CCNNNNNNNGG 1 cut(s) 266
AflIII ACRYGT 1 cut(s) 59
AgsI TTSAA 2 cut(s) 301, 383
AjnI CCWGG 1 cut(s) 309
AluBI AGCT 5 cut(s) 103, 404, 419, 485, 509
AluI AGCT 5 cut(s) 103, 404, 419, 485, 509
Alw21I GWGCWC 1 cut(s) 406
Alw26I GTCTC 1 cut(s) 336
AoxI GGCC 1 cut(s) 557
ApeKI GCWGC 4 cut(s) 100, 145, 485, 506
ApoI RAATTY 1 cut(s) 370
AspA2I CCTAGG 1 cut(s) 260
AspLEI GCGC 1 cut(s) 228
AspS9I GGNCC 1 cut(s) 558
AsuHPI GGTGA 2 cut(s) 40, 164
AvrII CCTAGG 1 cut(s) 260
BanI GGYRCC 1 cut(s) 293
BanII GRGCYC 2 cut(s) 272, 406
BarI GAAGNNNNNNTAC 2 cut(s) 408, 440
BauI CACGAG 1 cut(s) 242
BbsI GAAGAC 1 cut(s) 390
Bbv12I GWGCWC 1 cut(s) 406
BbvI GCAGC 4 cut(s) 112, 157, 472, 518
BccI CCATC 5 cut(s) 17, 243, 259, 284, 392
BciT130I CCWGG 1 cut(s) 311
BcoDI GTCTC 1 cut(s) 336
BfaI CTAG 5 cut(s) 207, 261, 468, 572, 586
BfoI RGCGCY 1 cut(s) 229
BisI GCNGC 4 cut(s) 101, 146, 486, 507
BlnI CCTAGG 1 cut(s) 260
BlsI GCNGC 4 cut(s) 102, 147, 487, 508
Bme1390I CCNGG 1 cut(s) 311
BmgT120I GGNCC 1 cut(s) 558
BmiI GGNNCC 1 cut(s) 295
BmrFI CCNGG 1 cut(s) 311
BoxI GACNNNNGTC 1 cut(s) 390
BpiI GAAGAC 1 cut(s) 390
BpmI CTGGAG 1 cut(s) 572
Bpu10I CCTNAGC 1 cut(s) 420
BsaJI CCNNGG 1 cut(s) 260
Bsc4I CCNNNNNNNGG 1 cut(s) 266
BseBI CCWGG 1 cut(s) 311
BseDI CCNNGG 1 cut(s) 260
BseGI GGATG 1 cut(s) 270
BseLI CCNNNNNNNGG 1 cut(s) 266
BseMII CTCAG 2 cut(s) 285, 403
BseXI GCAGC 4 cut(s) 112, 157, 472, 518
BseYI CCCAGC 1 cut(s) 173
BsgI GTGCAG 2 cut(s) 164, 212
BshFI GGCC 1 cut(s) 559
BshNI GGYRCC 1 cut(s) 293
BsiHKAI GWGCWC 1 cut(s) 406
BslFI GGGAC 1 cut(s) 70
BslI CCNNNNNNNGG 1 cut(s) 266
BsmAI GTCTC 1 cut(s) 336
BsmBI CGTCTC 1 cut(s) 336
BsmFI GGGAC 1 cut(s) 70
BsnI GGCC 1 cut(s) 559
Bsp1286I GDGCHC 2 cut(s) 272, 406
Bsp143I GATC 1 cut(s) 333
BspANI GGCC 1 cut(s) 559
BspCNI CTCAG 2 cut(s) 284, 402
BspLI GGNNCC 1 cut(s) 295
BspT107I GGYRCC 1 cut(s) 293
BssECI CCNNGG 1 cut(s) 260
BssMI GATC 1 cut(s) 333
BssSI CACGAG 1 cut(s) 242
BssT1I CCWWGG 1 cut(s) 260
Bst2BI CACGAG 1 cut(s) 242
Bst2UI CCWGG 1 cut(s) 311
Bst4CI ACNGT 2 cut(s) 39, 429
BstC8I GCNNGC 1 cut(s) 316
BstDEI CTNAG 3 cut(s) 271, 389, 420
BstF5I GGATG 1 cut(s) 270
BstH2I RGCGCY 1 cut(s) 229
BstHHI GCGC 1 cut(s) 228
BstKTI GATC 1 cut(s) 336
BstMAI GTCTC 1 cut(s) 336
BstMBI GATC 1 cut(s) 333
BstMWI GCNNNNNNNGC 4 cut(s) 106, 190, 315, 506
BstNI CCWGG 1 cut(s) 311
BstNSI RCATGY 3 cut(s) 49, 63, 318
BstPAI GACNNNNGTC 1 cut(s) 390
BstSCI CCNGG 1 cut(s) 309
BstV1I GCAGC 4 cut(s) 112, 157, 472, 518
BstV2I GAAGAC 1 cut(s) 390
BsuRI GGCC 1 cut(s) 559
BtsCI GGATG 1 cut(s) 270
Cac8I GCNNGC 1 cut(s) 316
CfoI GCGC 1 cut(s) 228
Cfr13I GGNCC 1 cut(s) 558
CseI GACGC 1 cut(s) 353
Csp6I GTAC 1 cut(s) 425
CviAII CATG 6 cut(s) 46, 60, 110, 131, 304, 315
CviQI GTAC 1 cut(s) 425
DdeI CTNAG 3 cut(s) 271, 389, 420
DpnI GATC 1 cut(s) 335
DpnII GATC 1 cut(s) 333
Ecl136II GAGCTC 1 cut(s) 404
Eco130I CCWWGG 1 cut(s) 260
Eco24I GRGCYC 2 cut(s) 272, 406
Eco53kI GAGCTC 1 cut(s) 404
EcoICRI GAGCTC 1 cut(s) 404
EcoRII CCWGG 1 cut(s) 309
EcoT14I CCWWGG 1 cut(s) 260
EcoT38I GRGCYC 2 cut(s) 272, 406
ErhI CCWWGG 1 cut(s) 260
Esp3I CGTCTC 1 cut(s) 336
FaeI CATG 6 cut(s) 49, 63, 113, 134, 307, 318
FaiI YATR 9 cut(s) 47, 61, 111, 132, 305, 316, 462, 492, 532
FaqI GGGAC 1 cut(s) 70
FatI CATG 6 cut(s) 45, 59, 109, 130, 303, 314
FblI GTMKAC 1 cut(s) 238
Fnu4HI GCNGC 4 cut(s) 101, 146, 486, 507
FokI GGATG 1 cut(s) 277
FriOI GRGCYC 2 cut(s) 272, 406
Fsp4HI GCNGC 4 cut(s) 101, 146, 486, 507
FspBI CTAG 5 cut(s) 207, 261, 468, 572, 586
GlaI GCGC 1 cut(s) 227
GluI GCNGC 4 cut(s) 101, 146, 486, 507
GsaI CCCAGC 1 cut(s) 177
GsuI CTGGAG 1 cut(s) 572
HaeII RGCGCY 1 cut(s) 229
HaeIII GGCC 1 cut(s) 559
HgaI GACGC 1 cut(s) 353
HhaI GCGC 1 cut(s) 228
Hin1II CATG 6 cut(s) 49, 63, 113, 134, 307, 318
Hin6I GCGC 1 cut(s) 226
HinP1I GCGC 1 cut(s) 226
HphI GGTGA 2 cut(s) 40, 164
Hpy166II GTNNAC 1 cut(s) 239
Hpy188III TCNNGA 2 cut(s) 395, 551
Hpy8I GTNNAC 1 cut(s) 239
HpyAV CCTTC 1 cut(s) 332
HpyCH4III ACNGT 2 cut(s) 39, 429
HpyCH4V TGCA 3 cut(s) 145, 159, 193
HpyF10VI GCNNNNNNNGC 4 cut(s) 106, 190, 315, 506
HpyF3I CTNAG 3 cut(s) 271, 389, 420
Hsp92II CATG 6 cut(s) 49, 63, 113, 134, 307, 318
HspAI GCGC 1 cut(s) 226
Kzo9I GATC 1 cut(s) 333
LmnI GCTCC 1 cut(s) 401
LpnPI CCDG 6 cut(s) 159, 216, 296, 323, 408, 536
Lsp1109I GCAGC 4 cut(s) 112, 157, 472, 518
MaeI CTAG 5 cut(s) 207, 261, 468, 572, 586
MaeIII GTNAC 1 cut(s) 41
MalI GATC 1 cut(s) 335
MboI GATC 1 cut(s) 333
MboII GAAGA 1 cut(s) 395
MhlI GDGCHC 2 cut(s) 272, 406
MluCI AATT 3 cut(s) 325, 370, 408
MmeI TCCRAC 1 cut(s) 399
MnlI CCTC 1 cut(s) 398
MseI TTAA 1 cut(s) 368
MslI CAYNNNNRTG 1 cut(s) 535
MspR9I CCNGG 1 cut(s) 311
MvaI CCWGG 1 cut(s) 311
MwoI GCNNNNNNNGC 4 cut(s) 106, 190, 315, 506
NdeII GATC 1 cut(s) 333
NlaIII CATG 6 cut(s) 49, 63, 113, 134, 307, 318
NlaIV GGNNCC 1 cut(s) 295
NspI RCATGY 3 cut(s) 49, 63, 318
PaeI GCATGC 1 cut(s) 318
PciI ACATGT 1 cut(s) 59
PkrI GCNGC 4 cut(s) 102, 147, 487, 508
PscI ACATGT 1 cut(s) 59
PshAI GACNNNNGTC 1 cut(s) 390
Psp124BI GAGCTC 1 cut(s) 406
Psp6I CCWGG 1 cut(s) 309
PspFI CCCAGC 1 cut(s) 173
PspGI CCWGG 1 cut(s) 309
PspN4I GGNNCC 1 cut(s) 295
PspPI GGNCC 1 cut(s) 558
RsaI GTAC 1 cut(s) 426
RsaNI GTAC 1 cut(s) 425
RseI CAYNNNNRTG 1 cut(s) 535
SacI GAGCTC 1 cut(s) 406
SaqAI TTAA 1 cut(s) 368
SatI GCNGC 4 cut(s) 101, 146, 486, 507
Sau3AI GATC 1 cut(s) 333
Sau96I GGNCC 1 cut(s) 558
ScrFI CCNGG 1 cut(s) 311
SduI GDGCHC 2 cut(s) 272, 406
SmiMI CAYNNNNRTG 1 cut(s) 535
SphI GCATGC 1 cut(s) 318
Sse9I AATT 3 cut(s) 325, 370, 408
SspI AATATT 1 cut(s) 286
SspMI CTAG 5 cut(s) 207, 261, 468, 572, 586
SstI GAGCTC 1 cut(s) 406
StyD4I CCNGG 1 cut(s) 309
StyI CCWWGG 1 cut(s) 260
TaaI ACNGT 2 cut(s) 39, 429
TaqI TCGA 1 cut(s) 336
TasI AATT 3 cut(s) 325, 370, 408
Tru1I TTAA 1 cut(s) 368
Tru9I TTAA 1 cut(s) 368
TseI GCWGC 4 cut(s) 100, 145, 485, 506
TspDTI ATGAA 3 cut(s) 47, 126, 429
XapI RAATTY 1 cut(s) 370
XceI RCATGY 3 cut(s) 49, 63, 318
XmaJI CCTAGG 1 cut(s) 260
XmiI GTMKAC 1 cut(s) 238
XspI CTAG 5 cut(s) 207, 261, 468, 572, 586
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.