Rw3G018750

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000204
Physical Location & Seq
Forward (+)
21016736 .. 21017431
696 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G018750.1

Sequence Viewer

Length: 696 bp
ATGCTCTTTCTACTATGTTTTACACGACTTGGGCTATTTGGACTTGTAGAAATAAAATCATTTTTAGAAATCTACAACTTTCGTCTTTCGCCGGTTGACTGTTTGTTTCAAGCTTTCACACTCAGCTCTAACTATGCCAAAGCCAATCCTAAATGCTCCCAGCCAAAGATCTCAAGATACTTTCATATTAAATGGCAACCTCCTAATATGCACCAAGTTAAGTTAAACTTTGATGCTTATGTCCGGAATCATGTGGCTTCTATTGGTTTTGTTATCCGTAATGAAGATGGACAACCTATAGTGGCAGCTAATAGACAAATTGGTTGTGCTCCTGTTCTTGTTGCGGAGGCTACAACACTGCGGGAGGGCTTACACACAGCGGTCTTACATGGCTTTCCTAATGTTATTGTTGAGGGTGACTCGAAGATTGTTATGGACTGCATCCGTGGTGCTTGCCAACTACCTTGGCAAATCAGAACACTGATTCAAGATGTCCAGATTCTCACTCGTCAGCTACAGTCCGTTATTTTCCTTCATATATATCGCGAAGCCAACTTTGTCGCAGATCAATTAGCATTGGCAGCTCAGAGGTCTCAGAATCCATCTGTTTGGTTTTACTGTTTACCCTTTTATGTGTCCCCAGCGTTCCATTTGGATCAGTTGGGAGGGGGTGTTAGCAGAGGTTTTGTCATTTAG
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

231

Amino Acids

26.12

Weight (kDa)

8.88

Isoelectric Point (pI)

47.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 76 - 192 2.8e-23 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: OG0000204)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04625 AT1G27220 AT1G27250 AT1G27870 AT1G47497 AT1G47497 AT1G50160 AT1G52990 AT1G52990 AT1G77815 AT2G02650 AT2G04420 AT2G11205 AT2G13980 AT2G33160 AT2G46460 AT3G09510 AT3G23320 AT3G25270 AT3G32130 AT4G03292 AT4G09775 AT5G26617 AT5G44470 AT5G52115 AT5G65005
fragaria_vesca FvH4_1g25222 FvH4_1g28481 FvH4_3g03751 FvH4_3g24081 FvH4_3g35341 FvH4_5g31961 FvH4_6g20891 FvH4_6g23253 FvH4_6g31361 FvH4_6g53051
malus_domestica MD14G1209300.v1.1
prunus_persica Prupe.1G168800_v2.0.a1 Prupe.1G509200_v2.0.a1 Prupe.2G042000_v2.0.a1 Prupe.2G133200_v2.0.a1 Prupe.2G140300_v2.0.a1 Prupe.3G103800_v2.0.a1 Prupe.4G217300_v2.0.a1 Prupe.4G245300_v2.0.a1 Prupe.5G002600_v2.0.a1 Prupe.5G134600_v2.0.a1 Prupe.6G185900_v2.0.a1 Prupe.6G308300_v2.0.a1 Prupe.7G010700_v2.0.a1 Prupe.8G078100_v2.0.a1 Prupe.8G128400_v2.0.a1
pyrus_communis pycom01g14230 pycom03g12410 pycom08g15160 pycom08g21670 pycom10g25730 pycom10g25740 pycom11g15380 pycom14g10440 pycom14g11510 pycom15g31840 pycom16g02370
rosa_chinensis RchiOBHm_Chr4g0440421 RchiOBHm_Chr5g0005841 RchiOBHm_Chr6g0289481 RchiOBHm_Chr7g0218671
rosa_laevigata RLG00000011653 RLG00000031330 RLG00000031331 RLG00000032722
rosa_multiflora Rmu_co8243061.1_g000001 Rmu_sc0000470.1_g000036 Rmu_sc0000581.1_g000008 Rmu_sc0000666.1_g000017 Rmu_sc0000905.1_g000019 Rmu_sc0000976.1_g000013 Rmu_sc0001066.1_g000001 Rmu_sc0001103.1_g000007 Rmu_sc0001180.1_g000001 Rmu_sc0001643.1_g000034 Rmu_sc0001759.1_g000007 Rmu_sc0001850.1_g000051 Rmu_sc0001910.1_g000008 Rmu_sc0001981.1_g000015 Rmu_sc0001981.1_g000029 Rmu_sc0002209.1_g000015 Rmu_sc0002406.1_g000010 Rmu_sc0003743.1_g000002 Rmu_sc0006416.1_g000026 Rmu_sc0006513.1_g000006 Rmu_sc0006577.1_g000010 Rmu_sc0014652.1_g000001 Rmu_sc0016202.1_g000003
rosa_roxburghii Rroxscaffold_1G00001530 Rroxscaffold_1G00047250 Rroxscaffold_5G00340720 Rroxscaffold_7G00171110 Rroxscaffold_7G00177650
rosa_rugosa Rorug01G0044800 Rorug01G0204500 Rorug01G0224700 Rorug01G0267800 Rorug02G0038400 Rorug02G0107100 Rorug02G0180700 Rorug02G0363800 Rorug02G0374300 Rorug02G0491400 Rorug02G0491400 Rorug03G0104200 Rorug03G0109800 Rorug03G0334200 Rorug04G0007100 Rorug04G0061400.1 Rorug04G0080000 Rorug05G0152200 Rorug05G0188800 Rorug05G0234800 Rorug05G0239900 Rorug05G0284800 Rorug06G0044700 Rorug06G0205700 Rorug06G0266900 Rorug06G0440700 Rorug07G0037400 Rorug07G0192100 Rorug07G0196900 Rorug07G0237500 Rorug07G0336400.1 RorugPtG0002500.1
rosa_samantha Rh1BG014800 Rh1CG017500 Rh2CG332500 Rh3BG371800 Rh5AG046000 Rh5AG046100 Rh5BG044700 Rh5BG044800 Rh5BG248000 Rh5CG053600 Rh5CG053700 Rh5DG044500 Rh5DG044600 Rh6AG052800 Rh6AG315400 Rh6DG021400 Rh7AG409500
rosa_wichuraiana Rw3G007750 Rw3G018750 Rw4G008820 Rw5G004630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 546
AccIII TCCGGA 1 cut(s) 243
AciI CCGC 3 cut(s) 344, 361, 380
AclWI GGATC 1 cut(s) 663
AgsI TTSAA 2 cut(s) 110, 488
AluBI AGCT 5 cut(s) 113, 126, 308, 514, 584
AluI AGCT 5 cut(s) 113, 126, 308, 514, 584
Alw21I GWGCWC 1 cut(s) 331
Alw26I GTCTC 1 cut(s) 597
AlwI GGATC 1 cut(s) 663
Aor13HI TCCGGA 1 cut(s) 243
ApeKI GCWGC 2 cut(s) 305, 581
AsuHPI GGTGA 1 cut(s) 428
Bbv12I GWGCWC 1 cut(s) 331
BbvI GCAGC 2 cut(s) 317, 593
BccI CCATC 2 cut(s) 281, 610
BcoDI GTCTC 1 cut(s) 597
BfmI CTRYAG 2 cut(s) 297, 515
BglII AGATCT 1 cut(s) 168
BisI GCNGC 2 cut(s) 306, 582
BlsI GCNGC 2 cut(s) 307, 583
BmsI GCATC 2 cut(s) 223, 450
BplI GAGNNNNNCTC 2 cut(s) 404, 436
BpuEI CTTGAG 1 cut(s) 157
BsaI GGTCTC 1 cut(s) 597
BsaJI CCNNGG 2 cut(s) 445, 464
BsaWI WCCGGW 1 cut(s) 243
BsaXI ACNNNNNCTCC 2 cut(s) 657, 687
Bse118I RCCGGY 1 cut(s) 91
BseAI TCCGGA 1 cut(s) 243
BseDI CCNNGG 2 cut(s) 445, 464
BseGI GGATG 1 cut(s) 441
BseMII CTCAG 3 cut(s) 136, 599, 608
BseXI GCAGC 2 cut(s) 317, 593
BseYI CCCAGC 2 cut(s) 159, 640
Bsh1236I CGCG 1 cut(s) 546
BsiHKAI GWGCWC 1 cut(s) 331
BsiSI CCGG 2 cut(s) 92, 244
BslFI GGGAC 1 cut(s) 622
BsmAI GTCTC 1 cut(s) 597
BsmFI GGGAC 1 cut(s) 622
Bso31I GGTCTC 1 cut(s) 597
Bsp1286I GDGCHC 1 cut(s) 331
Bsp13I TCCGGA 1 cut(s) 243
Bsp143I GATC 3 cut(s) 168, 565, 655
Bsp68I TCGCGA 1 cut(s) 546
BspACI CCGC 3 cut(s) 344, 361, 380
BspCNI CTCAG 3 cut(s) 135, 598, 607
BspEI TCCGGA 1 cut(s) 243
BspFNI CGCG 1 cut(s) 546
BspPI GGATC 1 cut(s) 663
BspTNI GGTCTC 1 cut(s) 597
BsrFI RCCGGY 1 cut(s) 91
BssAI RCCGGY 1 cut(s) 91
BssECI CCNNGG 2 cut(s) 445, 464
BssMI GATC 3 cut(s) 168, 565, 655
BssT1I CCWWGG 1 cut(s) 464
Bst4CI ACNGT 3 cut(s) 101, 519, 620
BstC8I GCNNGC 1 cut(s) 454
BstDEI CTNAG 3 cut(s) 122, 585, 594
BstDSI CCRYGG 1 cut(s) 445
BstF5I GGATG 1 cut(s) 441
BstFNI CGCG 1 cut(s) 546
BstKTI GATC 3 cut(s) 171, 568, 658
BstMAI GTCTC 1 cut(s) 597
BstMBI GATC 3 cut(s) 168, 565, 655
BstMWI GCNNNNNNNGC 1 cut(s) 581
BstSFI CTRYAG 2 cut(s) 297, 515
BstUI CGCG 1 cut(s) 546
BstV1I GCAGC 2 cut(s) 317, 593
BstX2I RGATCY 1 cut(s) 168
BstXI CCANNNNNNTGG 1 cut(s) 609
BstYI RGATCY 1 cut(s) 168
BtgI CCRYGG 1 cut(s) 445
BtsCI GGATG 1 cut(s) 441
BtsI GCAGTG 1 cut(s) 356
BtsIMutI CAGTG 2 cut(s) 356, 479
BtuMI TCGCGA 1 cut(s) 546
Cac8I GCNNGC 1 cut(s) 454
Cfr10I RCCGGY 1 cut(s) 91
CviAII CATG 2 cut(s) 251, 389
DdeI CTNAG 3 cut(s) 122, 585, 594
DpnI GATC 3 cut(s) 170, 567, 657
DpnII GATC 3 cut(s) 168, 565, 655
Eco130I CCWWGG 1 cut(s) 464
Eco31I GGTCTC 1 cut(s) 597
EcoT14I CCWWGG 1 cut(s) 464
ErhI CCWWGG 1 cut(s) 464
FaeI CATG 2 cut(s) 254, 392
FalI AAGNNNNNCTT 2 cut(s) 212, 244
FaqI GGGAC 1 cut(s) 622
FatI CATG 2 cut(s) 250, 388
FauI CCCGC 1 cut(s) 354
Fnu4HI GCNGC 2 cut(s) 306, 582
FokI GGATG 1 cut(s) 428
Fsp4HI GCNGC 2 cut(s) 306, 582
GluI GCNGC 2 cut(s) 306, 582
GsaI CCCAGC 2 cut(s) 163, 644
HapII CCGG 2 cut(s) 92, 244
Hin1II CATG 2 cut(s) 254, 392
HincII GTYRAC 1 cut(s) 97
HindII GTYRAC 1 cut(s) 97
HindIII AAGCTT 1 cut(s) 111
HinfI GANTC 5 cut(s) 247, 419, 484, 499, 598
HpaII CCGG 2 cut(s) 92, 244
HphI GGTGA 1 cut(s) 428
Hpy166II GTNNAC 2 cut(s) 97, 623
Hpy188I TCNGA 3 cut(s) 476, 588, 597
Hpy188III TCNNGA 5 cut(s) 174, 244, 488, 496, 545
Hpy8I GTNNAC 2 cut(s) 97, 623
HpyAV CCTTC 1 cut(s) 542
HpyCH4III ACNGT 3 cut(s) 101, 519, 620
HpyCH4V TGCA 2 cut(s) 211, 441
HpyF10VI GCNNNNNNNGC 1 cut(s) 581
HpyF3I CTNAG 3 cut(s) 122, 585, 594
Hsp92II CATG 2 cut(s) 254, 392
Kpn2I TCCGGA 1 cut(s) 243
Kzo9I GATC 3 cut(s) 168, 565, 655
LmnI GCTCC 2 cut(s) 161, 334
LpnPI CCDG 6 cut(s) 105, 173, 257, 345, 509, 654
Lsp1109I GCAGC 2 cut(s) 317, 593
LweI GCATC 2 cut(s) 223, 450
MaeIII GTNAC 1 cut(s) 416
MalI GATC 3 cut(s) 170, 567, 657
MboI GATC 3 cut(s) 168, 565, 655
MboII GAAGA 2 cut(s) 296, 436
MflI RGATCY 1 cut(s) 168
MhlI GDGCHC 1 cut(s) 331
MluCI AATT 2 cut(s) 318, 569
MlyI GAGTC 1 cut(s) 413
MnlI CCTC 7 cut(s) 210, 340, 358, 406, 582, 659, 674
MroI TCCGGA 1 cut(s) 243
MseI TTAA 3 cut(s) 189, 219, 224
MspA1I CMGCKG 1 cut(s) 380
MspI CCGG 2 cut(s) 92, 244
MvnI CGCG 1 cut(s) 546
MwoI GCNNNNNNNGC 1 cut(s) 581
NdeII GATC 3 cut(s) 168, 565, 655
NlaIII CATG 2 cut(s) 254, 392
NmuCI GTSAC 1 cut(s) 416
NruI TCGCGA 1 cut(s) 546
PfeI GAWTC 4 cut(s) 247, 484, 499, 598
PkrI GCNGC 2 cut(s) 307, 583
PleI GAGTC 1 cut(s) 413
PpsI GAGTC 1 cut(s) 413
PspFI CCCAGC 2 cut(s) 159, 640
PsuI RGATCY 1 cut(s) 168
RruI TCGCGA 1 cut(s) 546
SaqAI TTAA 3 cut(s) 189, 219, 224
SatI GCNGC 2 cut(s) 306, 582
Sau3AI GATC 3 cut(s) 168, 565, 655
SchI GAGTC 1 cut(s) 413
SduI GDGCHC 1 cut(s) 331
SfaNI GCATC 2 cut(s) 223, 450
SfcI CTRYAG 2 cut(s) 297, 515
SmlI CTYRAG 1 cut(s) 172
SmoI CTYRAG 1 cut(s) 172
Sse9I AATT 2 cut(s) 318, 569
SsiI CCGC 3 cut(s) 344, 361, 380
StyI CCWWGG 1 cut(s) 464
TaaI ACNGT 3 cut(s) 101, 519, 620
TaqI TCGA 1 cut(s) 422
TasI AATT 2 cut(s) 318, 569
TfiI GAWTC 4 cut(s) 247, 484, 499, 598
Tru1I TTAA 3 cut(s) 189, 219, 224
Tru9I TTAA 3 cut(s) 189, 219, 224
TscAI CASTG 2 cut(s) 363, 486
TseFI GTSAC 1 cut(s) 416
TseI GCWGC 2 cut(s) 305, 581
Tsp45I GTSAC 1 cut(s) 416
TspDTI ATGAA 3 cut(s) 173, 297, 524
TspGWI ACGGA 3 cut(s) 266, 434, 511
TspRI CASTG 2 cut(s) 363, 486
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.