Rh5DG566900

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000147
Physical Location & Seq
Forward (+)
87426471 .. 87430950
4480 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG566900.1

Sequence Viewer

Length: 924 bp
ATGAGGCTACTCTCTTGGAACTGTCAGGGATTAGGGTCCTCTCTGACAGCAAAAGCCCTTCGAAGGTTATGGCGTAAGTATGACCCAGATATGCTGTTTTTGATGGAGACACATCAGCCTTCTGATGTGGTTTCTTCTTGGTTTAAACAGCTCAAGTTTGATCACTTTTTTGTTGTTGATCCTGTAAATACTAGTAGTGGTGGTTTGGCTCTGTTTTGGAAATCTTCAGCTCAAGTATCAGTCTTGTATGATTCGGTAAATGTCATAGATACTGAGGTTTTGTTTGTACATGAAGATTTCCGTTGTAACATAAGTTGGATGTATGGCAATCCTTATGAAAATGAAAAGAAAGTGTTTTGGAGTTACATGATTCGTCGTTTTCCACTTCGTTTTCTTCCTTGGGTTTGTTTCGGTGATTTCAATGAGATTCAATGGACCTATGAGAAATGGGGAGGTCTTCCTCATTCTCGGTGCCGCATGGATCTCTTTAATCATTTTATTACTCAGGCCGGATTGAGGGATTTGCACTTCCAGGGTCCTTGTTTCACTTGGTATTGTTATCGTTTTGGGGACCTCTATATTAAGGAACGCTTGGATAGAGGTCTTGCAAATTCGTCTTGGTGTTTGGCTAAACCAAAGACTCAAGTTTTCCATCTTCCCTTAATTGGGTCGGATCATCGACCTTTGCTGTTGGATGCTTCTCCAGTTGAATCTAAAGCCCCAAAACTTTTCAGGTTTGAGCATATTTGGACGACTAGTGATATGTGTGGCCATATCATTGCAGAAAATTGGGTGGCTGCTTCTGGCTTTGCTGCTATGCCAGTTTGGCTCACAAATCTCCAGGCTTGTAAGGAACCAGTCCCATCGGCTGCTGAACAAACAATTAAAGCTTTCCAAGACTTACTATCAGGTTATGCATTGTAG
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-CCHC_4 zf-RVT

Protein Analysis

307

Amino Acids

35.71

Weight (kDa)

7.6

Isoelectric Point (pI)

39.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Exo_endo_phos PF03372 4 - 226 4.1e-13 Endonuclease/Exonuclease/phosphatase family
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: OG0000147)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g10354 FvH4_1g17131 FvH4_2g11611 FvH4_2g33851 FvH4_3g32112 FvH4_3g35052 FvH4_3g44611 FvH4_4g05921 FvH4_4g06411 FvH4_4g06792 FvH4_4g10365 FvH4_4g21422 FvH4_4g22401 FvH4_4g30261 FvH4_5g08843 FvH4_5g14731 FvH4_5g24781 FvH4_5g26231 FvH4_5g31282 FvH4_6g23371 FvH4_6g38511 FvH4_7g01171 FvH4_7g03341 FvH4_7g06171 FvH4_7g32472
prunus_persica Prupe.2G036900_v2.0.a1
pyrus_communis pycom02g19900 pycom03g01520 pycom05g10510 pycom16g23820
rosa_chinensis RchiOBHm_Chr1g0316031 RchiOBHm_Chr1g0342451 RchiOBHm_Chr1g0344541 RchiOBHm_Chr1g0364721 RchiOBHm_Chr2g0133541 RchiOBHm_Chr2g0134511 RchiOBHm_Chr2g0145891 RchiOBHm_Chr2g0163241 RchiOBHm_Chr5g0027201 RchiOBHm_Chr5g0027881 RchiOBHm_Chr5g0047471 RchiOBHm_Chr7g0210901
rosa_laevigata RLG00000011116 RLG00000017964 RLG00000018128 RLG00000018387 RLG00000018829 RLG00000019353 RLG00000028973 RLG00000035870 RLG00000036629
rosa_multiflora Rmu_co8126340.1_g000001 Rmu_co8216750.1_g000001 Rmu_co8222072.1_g000001 Rmu_co8332453.1_g000001 Rmu_co8349913.1_g000001 Rmu_co8405337.1_g000001 Rmu_sc0000041.1_g000012 Rmu_sc0000166.1_g000029 Rmu_sc0000251.1_g000019 Rmu_sc0000271.1_g000028 Rmu_sc0000509.1_g000036 Rmu_sc0000543.1_g000048 Rmu_sc0000808.1_g000003 Rmu_sc0000847.1_g000040 Rmu_sc0000972.1_g000020 Rmu_sc0001260.1_g000001 Rmu_sc0001464.1_g000026 Rmu_sc0001616.1_g000003 Rmu_sc0001669.1_g000001 Rmu_sc0002005.1_g000001 Rmu_sc0002014.1_g000010 Rmu_sc0002082.1_g000033 Rmu_sc0002302.1_g000024 Rmu_sc0002531.1_g000045 Rmu_sc0003276.1_g000002 Rmu_sc0003737.1_g000007 Rmu_sc0003832.1_g000022 Rmu_sc0004080.1_g000011 Rmu_sc0004487.1_g000009 Rmu_sc0004988.1_g000018 Rmu_sc0004988.1_g000019 Rmu_sc0005254.1_g000002 Rmu_sc0005733.1_g000004 Rmu_sc0006413.1_g000006 Rmu_sc0007121.1_g000013 Rmu_sc0007869.1_g000006 Rmu_sc0008035.1_g000015 Rmu_sc0008279.1_g000017 Rmu_sc0008351.1_g000014 Rmu_sc0008957.1_g000007 Rmu_sc0009012.1_g000007 Rmu_sc0010556.1_g000009 Rmu_sc0012889.1_g000003 Rmu_sc0019808.1_g000004 Rmu_sc0028113.1_g000001 Rmu_sc0031202.1_g000001 Rmu_sc0034436.1_g000001 Rmu_sc0034445.1_g000001 Rmu_sc0040044.1_g000001 Rmu_ssc0000062.1_g000032 Rmu_ssc0000372.1_g000018
rosa_roxburghii Rroxscaffold_1G00001520 Rroxscaffold_1G00039990 Rroxscaffold_1G00046370 Rroxscaffold_2G00110140 Rroxscaffold_2G00131420 Rroxscaffold_3G00222390 Rroxscaffold_5G00336040 Rroxscaffold_5G00338000 Rroxscaffold_5G00344030 Rroxscaffold_5G00363460 Rroxscaffold_6G00402000 Rroxscaffold_7G00194940
rosa_rugosa Rorug01G0106500 Rorug01G0111300 Rorug01G0247000 Rorug02G0318100.1 Rorug02G0318200 Rorug02G0459500 Rorug03G0108100 Rorug03G0200500 Rorug03G0232500 Rorug03G0240600 Rorug04G0105300 Rorug04G0256600 Rorug06G0079300 Rorug06G0082700 Rorug06G0095600 Rorug06G0179000 Rorug07G0113500 Rorug07G0271100
rosa_samantha Rh1AG087200 Rh1CG085300 Rh1DG013200 Rh1DG091700 Rh1DG091800 Rh1DG338300 Rh2AG375400 Rh2AG407000 Rh2AG513500 Rh2BG277700 Rh2BG371200 Rh2BG376100 Rh2BG580500 Rh2CG354300 Rh2DG200100 Rh2DG388000 Rh2DG393500 Rh2DG426400 Rh3CG304800 Rh4AG044600 Rh4AG220500 Rh4BG379300 Rh4CG007100 Rh4CG030300 Rh4CG038000 Rh4CG114900 Rh4CG393700 Rh5AG124900 Rh5AG342300 Rh5BG414400 Rh5CG263800 Rh5CG439000 Rh5DG231100 Rh5DG566900 Rh6AG138600 Rh6AG200000 Rh6AG253100 Rh6AG390900 Rh6AG441600 Rh6BG194700 Rh6BG225800 Rh6BG256100 Rh6CG231700 Rh6CG231900 Rh6CG312200 Rh6CG453700 Rh6DG219400 Rh7AG357700 Rh7AG442000 Rh7CG425700 Rh7CG474600 Rh7CG494100 Rh7DG253900 Rh7DG294700 Rh7DG401600 Rh7DG461300
rosa_wichuraiana Rw1G001190 Rw2G047020 Rw4G003490 Rw5G039690 Rw6G010450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 471
AciI CCGC 1 cut(s) 475
AclWI GGATC 3 cut(s) 173, 489, 681
AcoI YGGCCR 1 cut(s) 769
AcsI RAATTY 1 cut(s) 610
AcuI CTGAAG 1 cut(s) 210
AfaI GTAC 1 cut(s) 288
AfiI CCNNNNNNNGG 4 cut(s) 63, 516, 665, 666
AgsI TTSAA 3 cut(s) 421, 431, 710
AhlI ACTAGT 2 cut(s) 191, 755
AjnI CCWGG 2 cut(s) 531, 840
AluBI AGCT 3 cut(s) 151, 230, 890
AluI AGCT 3 cut(s) 151, 230, 890
Alw26I GTCTC 1 cut(s) 101
AlwI GGATC 3 cut(s) 173, 489, 681
AoxI GGCC 2 cut(s) 507, 769
ApeKI GCWGC 3 cut(s) 797, 812, 869
ApoI RAATTY 1 cut(s) 610
AspS9I GGNCC 4 cut(s) 36, 435, 536, 571
AsuHPI GGTGA 1 cut(s) 425
AsuII TTCGAA 1 cut(s) 61
AvaII GGWCC 4 cut(s) 36, 435, 536, 571
BaeI ACNNNNGTAYC 2 cut(s) 261, 294
BalI TGGCCA 1 cut(s) 771
BanI GGYRCC 1 cut(s) 471
BbsI GAAGAC 1 cut(s) 449
BbvI GCAGC 3 cut(s) 784, 799, 856
BccI CCATC 3 cut(s) 97, 660, 871
BciT130I CCWGG 2 cut(s) 533, 842
BclI TGATCA 1 cut(s) 160
BcoDI GTCTC 1 cut(s) 101
BcuI ACTAGT 2 cut(s) 191, 755
BfaI CTAG 2 cut(s) 192, 756
BglI GCCNNNNNGGC 1 cut(s) 826
BisI GCNGC 4 cut(s) 475, 798, 813, 870
BlsI GCNGC 4 cut(s) 476, 799, 814, 871
Bme1390I CCNGG 2 cut(s) 533, 842
Bme18I GGWCC 4 cut(s) 36, 435, 536, 571
BmgT120I GGNCC 4 cut(s) 36, 435, 536, 571
BmiI GGNNCC 5 cut(s) 37, 473, 537, 572, 855
BmrFI CCNGG 2 cut(s) 533, 842
BmsI GCATC 1 cut(s) 685
BpiI GAAGAC 1 cut(s) 449
BpmI CTGGAG 2 cut(s) 687, 824
Bpu14I TTCGAA 1 cut(s) 61
BpuEI CTTGAG 3 cut(s) 137, 216, 627
BsaJI CCNNGG 2 cut(s) 398, 532
Bsc4I CCNNNNNNNGG 4 cut(s) 63, 516, 665, 666
Bse1I ACTGG 3 cut(s) 704, 821, 857
Bse3DI GCAATG 1 cut(s) 777
BseBI CCWGG 2 cut(s) 533, 842
BseDI CCNNGG 2 cut(s) 398, 532
BseGI GGATG 2 cut(s) 324, 700
BseLI CCNNNNNNNGG 4 cut(s) 63, 516, 665, 666
BseMI GCAATG 1 cut(s) 777
BseMII CTCAG 2 cut(s) 264, 518
BseNI ACTGG 3 cut(s) 704, 821, 857
BseXI GCAGC 3 cut(s) 784, 799, 856
BshFI GGCC 2 cut(s) 509, 771
BshNI GGYRCC 1 cut(s) 471
BsiSI CCGG 1 cut(s) 510
BslFI GGGAC 2 cut(s) 584, 845
BslI CCNNNNNNNGG 4 cut(s) 63, 516, 665, 666
BsmAI GTCTC 1 cut(s) 101
BsmFI GGGAC 2 cut(s) 584, 845
BsnI GGCC 2 cut(s) 509, 771
Bsp119I TTCGAA 1 cut(s) 61
Bsp1407I TGTACA 1 cut(s) 286
Bsp143I GATC 4 cut(s) 160, 178, 481, 673
BspACI CCGC 1 cut(s) 475
BspANI GGCC 2 cut(s) 509, 771
BspCNI CTCAG 2 cut(s) 265, 517
BspLI GGNNCC 5 cut(s) 37, 473, 537, 572, 855
BspPI GGATC 3 cut(s) 173, 489, 681
BspT104I TTCGAA 1 cut(s) 61
BspT107I GGYRCC 1 cut(s) 471
BsrDI GCAATG 1 cut(s) 777
BsrGI TGTACA 1 cut(s) 286
BsrI ACTGG 3 cut(s) 704, 821, 857
BssECI CCNNGG 2 cut(s) 398, 532
BssMI GATC 4 cut(s) 160, 178, 481, 673
BssT1I CCWWGG 1 cut(s) 398
Bst2UI CCWGG 2 cut(s) 533, 842
Bst4CI ACNGT 1 cut(s) 23
BstAUI TGTACA 1 cut(s) 286
BstBI TTCGAA 1 cut(s) 61
BstDEI CTNAG 2 cut(s) 273, 504
BstF5I GGATG 2 cut(s) 324, 700
BstKTI GATC 4 cut(s) 163, 181, 484, 676
BstMAI GTCTC 1 cut(s) 101
BstMBI GATC 4 cut(s) 160, 178, 481, 673
BstMWI GCNNNNNNNGC 1 cut(s) 826
BstNI CCWGG 2 cut(s) 533, 842
BstSCI CCNGG 2 cut(s) 531, 840
BstV1I GCAGC 3 cut(s) 784, 799, 856
BstV2I GAAGAC 1 cut(s) 449
BstX2I RGATCY 1 cut(s) 481
BstYI RGATCY 1 cut(s) 481
BsuRI GGCC 2 cut(s) 509, 771
BtsCI GGATG 2 cut(s) 324, 700
Cfr13I GGNCC 4 cut(s) 36, 435, 536, 571
Csp6I GTAC 1 cut(s) 287
CviAII CATG 3 cut(s) 290, 367, 478
CviQI GTAC 1 cut(s) 287
DdeI CTNAG 2 cut(s) 273, 504
DpnI GATC 4 cut(s) 162, 180, 483, 675
DpnII GATC 4 cut(s) 160, 178, 481, 673
DraI TTTAAA 1 cut(s) 145
EaeI YGGCCR 1 cut(s) 769
Eco130I CCWWGG 1 cut(s) 398
Eco47I GGWCC 4 cut(s) 36, 435, 536, 571
Eco57I CTGAAG 1 cut(s) 210
EcoO109I RGGNCCY 3 cut(s) 36, 536, 571
EcoRII CCWGG 2 cut(s) 531, 840
EcoT14I CCWWGG 1 cut(s) 398
EcoT22I ATGCAT 1 cut(s) 919
ErhI CCWWGG 1 cut(s) 398
FaeI CATG 3 cut(s) 293, 370, 481
FalI AAGNNNNNCTT 2 cut(s) 575, 607
FaqI GGGAC 2 cut(s) 584, 845
FatI CATG 3 cut(s) 289, 366, 477
FbaI TGATCA 1 cut(s) 160
Fnu4HI GCNGC 4 cut(s) 475, 798, 813, 870
FokI GGATG 2 cut(s) 331, 707
Fsp4HI GCNGC 4 cut(s) 475, 798, 813, 870
FspBI CTAG 2 cut(s) 192, 756
GluI GCNGC 4 cut(s) 475, 798, 813, 870
GsuI CTGGAG 2 cut(s) 687, 824
HaeIII GGCC 2 cut(s) 509, 771
HapII CCGG 1 cut(s) 510
Hin1II CATG 3 cut(s) 293, 370, 481
HindIII AAGCTT 1 cut(s) 888
HinfI GANTC 5 cut(s) 251, 370, 427, 640, 710
HpaII CCGG 1 cut(s) 510
HphI GGTGA 1 cut(s) 425
Hpy188I TCNGA 3 cut(s) 45, 124, 673
Hpy99I CGWCG 1 cut(s) 378
HpyAV CCTTC 3 cut(s) 57, 68, 129
HpyCH4III ACNGT 1 cut(s) 23
HpyCH4V TGCA 4 cut(s) 526, 608, 782, 917
HpyF10VI GCNNNNNNNGC 1 cut(s) 826
HpyF3I CTNAG 2 cut(s) 273, 504
Hsp92II CATG 3 cut(s) 293, 370, 481
Ksp22I TGATCA 1 cut(s) 160
Kzo9I GATC 4 cut(s) 160, 178, 481, 673
Lsp1109I GCAGC 3 cut(s) 784, 799, 856
LweI GCATC 1 cut(s) 685
MaeI CTAG 2 cut(s) 192, 756
MaeIII GTNAC 2 cut(s) 305, 362
MalI GATC 4 cut(s) 162, 180, 483, 675
MboI GATC 4 cut(s) 160, 178, 481, 673
MboII GAAGA 6 cut(s) 126, 216, 305, 386, 449, 647
MflI RGATCY 1 cut(s) 481
MlsI TGGCCA 1 cut(s) 771
MluCI AATT 4 cut(s) 610, 663, 787, 882
MluNI TGGCCA 1 cut(s) 771
MlyI GAGTC 1 cut(s) 634
MmeI TCCRAC 3 cut(s) 296, 651, 672
MnlI CCTC 7 cut(s) 49, 268, 446, 471, 510, 584, 593
Mox20I TGGCCA 1 cut(s) 771
Mph1103I ATGCAT 1 cut(s) 919
MscI TGGCCA 1 cut(s) 771
MseI TTAA 5 cut(s) 144, 489, 582, 662, 885
Msp20I TGGCCA 1 cut(s) 771
MspI CCGG 1 cut(s) 510
MspR9I CCNGG 2 cut(s) 533, 842
MssI GTTTAAAC 1 cut(s) 145
MvaI CCWGG 2 cut(s) 533, 842
MwoI GCNNNNNNNGC 1 cut(s) 826
NdeII GATC 4 cut(s) 160, 178, 481, 673
NlaIII CATG 3 cut(s) 293, 370, 481
NlaIV GGNNCC 5 cut(s) 37, 473, 537, 572, 855
NsiI ATGCAT 1 cut(s) 919
NspV TTCGAA 1 cut(s) 61
PfeI GAWTC 4 cut(s) 251, 370, 427, 710
PkrI GCNGC 4 cut(s) 476, 799, 814, 871
PleI GAGTC 1 cut(s) 634
PmeI GTTTAAAC 1 cut(s) 145
PpsI GAGTC 1 cut(s) 634
PpuMI RGGWCCY 3 cut(s) 36, 536, 571
Psp5II RGGWCCY 3 cut(s) 36, 536, 571
Psp6I CCWGG 2 cut(s) 531, 840
PspGI CCWGG 2 cut(s) 531, 840
PspN4I GGNNCC 5 cut(s) 37, 473, 537, 572, 855
PspPI GGNCC 4 cut(s) 36, 435, 536, 571
PspPPI RGGWCCY 3 cut(s) 36, 536, 571
PsuI RGATCY 1 cut(s) 481
RsaI GTAC 1 cut(s) 288
RsaNI GTAC 1 cut(s) 287
SaqAI TTAA 5 cut(s) 144, 489, 582, 662, 885
SatI GCNGC 4 cut(s) 475, 798, 813, 870
Sau3AI GATC 4 cut(s) 160, 178, 481, 673
Sau96I GGNCC 4 cut(s) 36, 435, 536, 571
SchI GAGTC 1 cut(s) 634
ScrFI CCNGG 2 cut(s) 533, 842
SfaNI GCATC 1 cut(s) 685
SfuI TTCGAA 1 cut(s) 61
SinI GGWCC 4 cut(s) 36, 435, 536, 571
SmlI CTYRAG 3 cut(s) 152, 231, 642
SmoI CTYRAG 3 cut(s) 152, 231, 642
SpeI ACTAGT 2 cut(s) 191, 755
Sse9I AATT 4 cut(s) 610, 663, 787, 882
SsiI CCGC 1 cut(s) 475
SspMI CTAG 2 cut(s) 192, 756
StyD4I CCNGG 2 cut(s) 531, 840
StyI CCWWGG 1 cut(s) 398
TaaI ACNGT 1 cut(s) 23
TaqI TCGA 2 cut(s) 61, 679
TasI AATT 4 cut(s) 610, 663, 787, 882
TatI WGTACW 1 cut(s) 286
TauI GCSGC 1 cut(s) 477
TfiI GAWTC 4 cut(s) 251, 370, 427, 710
Tru1I TTAA 5 cut(s) 144, 489, 582, 662, 885
Tru9I TTAA 5 cut(s) 144, 489, 582, 662, 885
TseI GCWGC 3 cut(s) 797, 812, 869
TspDTI ATGAA 3 cut(s) 306, 351, 357
TspGWI ACGGA 1 cut(s) 290
VpaK11BI GGWCC 4 cut(s) 36, 435, 536, 571
XapI RAATTY 1 cut(s) 610
XspI CTAG 2 cut(s) 192, 756
Zsp2I ATGCAT 1 cut(s) 919
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.