RchiOBHm_Chr5g0018821

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000254
Physical Location & Seq
Reverse (-)
13313294 .. 13314505
1212 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ29898

Sequence Viewer

Length: 1212 bp
ATGGATAATTGTTGGGACACTATTCTTCTCTATGCTTGTCTGCCTCCTGAGATTGTGGAAAAAATCTTATGTATCCCTATTTCCAATCCAGCTTCTGTGAGGGATAAAGTCATCTGGCAGCATACCTCAAATGGAAAATTTTCAGTCAAAAGTGCCTATAACTGCCTTGTTACCATTCAGCAAACACCTTCTAGAAAATGGAGGCATATTTGGAATCTTTCTATCCCTCCGAAACTAAAGATCTTCACTTGGCTATTTATTCAAAGTAGATTGCTTACTAATGAGAATAGATTCAGAAGGCACATGACAGATAACCCCAATTGTAGTCATTGTATTGATCTGTATGAATCTATGCTTCATCTTTTCAGGGATTGCAGAAAGGCCAAGGAAGTTTGGAAAGATGTTGGTGTTCCTGTTACTATGCAAAGGACTTTCAACCTTGATTGGGAAGGGTGGATCACTGCTAATCTTTACCAGAACAACTGTAAGCATTTTGGCTTTAATTGGTCTCAATTGTTTGTGTTTATATGCTGGTTCATTTGGAAATGGAGGAACAAGTTTATTTTTGATAATGATTTTAAAGGTCCTCATAATGCCTCCACCACTATTCTTCAATACTTGCTGGAATGGAACAATGCTAATATAAAGCAATCTGGAGATTCTACTACTAGGGTGGAAATGATCGGTTGGAAGAAACCTAACAGAGGCCACTTTAAACTTAATGTGGATGGTTCTAAGAATGATAAGGGCCAGATAGGTGCTGGTGGAGTTATTAGAAATAATGAAGGTGTTTGGTGCAAGGGTTTTATGCAGCATATTGGTTATGGTGAAGTCTTGCAAGCTGAAGCTTGGGGCCTTGTGACTGGACTTCAAATTGCGGTTGATATGCAGATTAAGCATCTGGATGTGGAATCTGATTCTGCTATTCTCATAAATCTAATTCAGAGTAAGGATATTGATTTACACCCTTTAGGGACTCTGATTTTGAACTGTAGATCATTGATGAATCACTTTGAGTCTTGCTCCATTAAGCATATTCATAGAGAAAGAAATATGGTGGCAGACATCTTAGCGAAGCATAGCTTGGACAACGAACTAGGAGTTTGCAGAATGGACACAAACCCTCCGTTTATGAATCAAGTTTTGATGGATGATATTGATGGCCTGGTGAGGCCTAGGATGGTTGTAACAGCTTCGGTTGAGCAGTGGTAG
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

403

Amino Acids

46.79

Weight (kDa)

8.5

Isoelectric Point (pI)

32.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 47 - 132 4.8e-20 zinc-binding in reverse transcriptase
RVT_3 PF13456 241 - 360 2.4e-29 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: OG0000254)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g25671 FvH4_1g29782 FvH4_2g06731 FvH4_2g09413 FvH4_2g12061 FvH4_2g12671 FvH4_2g14202 FvH4_3g27901 FvH4_3g30492 FvH4_3g36953 FvH4_4g10141 FvH4_4g11162 FvH4_5g27995 FvH4_5g34262 FvH4_6g10681 FvH4_6g13733 FvH4_6g18164 FvH4_6g25491 FvH4_6g25791 FvH4_6g27023 FvH4_6g34321 FvH4_7g05070
pyrus_communis pycom04g06850
rosa_chinensis RchiOBHm_Chr1g0322281 RchiOBHm_Chr1g0334981 RchiOBHm_Chr1g0371181 RchiOBHm_Chr2g0125461 RchiOBHm_Chr2g0127141 RchiOBHm_Chr2g0128961 RchiOBHm_Chr2g0132921 RchiOBHm_Chr3g0486471 RchiOBHm_Chr3g0492911 RchiOBHm_Chr4g0412131 RchiOBHm_Chr4g0426941 RchiOBHm_Chr4g0437331 RchiOBHm_Chr5g0018821 RchiOBHm_Chr5g0040021 RchiOBHm_Chr5g0051041 RchiOBHm_Chr6g0266871 RchiOBHm_Chr6g0271761 RchiOBHm_Chr7g0200931 RchiOBHm_Chr7g0220091
rosa_multiflora Rmu_co7991344.1_g000001 Rmu_sc0000172.1_g000008 Rmu_sc0000194.1_g000010 Rmu_sc0000446.1_g000026 Rmu_sc0000496.1_g000011 Rmu_sc0000530.1_g000013 Rmu_sc0000706.1_g000044 Rmu_sc0000745.1_g000029 Rmu_sc0001301.1_g000027 Rmu_sc0001520.1_g000008 Rmu_sc0001966.1_g000025 Rmu_sc0001989.1_g000007 Rmu_sc0002239.1_g000002 Rmu_sc0002816.1_g000004 Rmu_sc0003458.1_g000001 Rmu_sc0003825.1_g000031 Rmu_sc0003919.1_g000002 Rmu_sc0004053.1_g000007 Rmu_sc0004161.1_g000008 Rmu_sc0004368.1_g000033 Rmu_sc0004383.1_g000002 Rmu_sc0004923.1_g000002 Rmu_sc0005065.1_g000001 Rmu_sc0005478.1_g000001 Rmu_sc0006847.1_g000031 Rmu_sc0009556.1_g000002 Rmu_sc0010783.1_g000007 Rmu_sc0011424.1_g000022 Rmu_sc0013205.1_g000002 Rmu_sc0017407.1_g000001 Rmu_sc0023757.1_g000002 Rmu_sc0032346.1_g000001 Rmu_ssc0000008.1_g000014 Rmu_ssc0000158.1_g000033 Rmu_ssc0000217.1_g000028
rosa_roxburghii Rroxscaffold_1G00000480 Rroxscaffold_1G00026050 Rroxscaffold_1G00026250 Rroxscaffold_2G00085120 Rroxscaffold_2G00119710 Rroxscaffold_2G00126610 Rroxscaffold_2G00129340 Rroxscaffold_3G00245550 Rroxscaffold_5G00340210 Rroxscaffold_5G00340330 Rroxscaffold_6G00397180 Rroxscaffold_7G00216160
rosa_rugosa Rorug01G0040000 Rorug01G0067400 Rorug01G0092300 Rorug01G0197000 Rorug01G0474200 Rorug01G0482500 Rorug01G0489300 Rorug02G0142900 Rorug02G0259000 Rorug02G0283200 Rorug02G0341400 Rorug02G0341600 Rorug02G0370900 Rorug02G0379700 Rorug02G0386100 Rorug02G0387300 Rorug03G0112600 Rorug03G0265600 Rorug03G0298800 Rorug04G0019500 Rorug05G0069900 Rorug05G0070500 Rorug05G0256800 Rorug05G0287300 Rorug05G0592000 Rorug06G0057800 Rorug06G0082000 Rorug06G0118900 Rorug06G0176500 Rorug06G0423100 Rorug07G0050100 Rorug07G0095100 Rorug07G0202100 Rorug07G0216600 Rorug07G0244300 Rorug07G0245500
rosa_samantha Rh1DG154800 Rh2CG613000 Rh6BG016600 Rh6BG475100 Rh6CG013200 Rh7AG443800
rosa_wichuraiana Rw0G021840 Rw4G023650

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 878
AclWI GGATC 1 cut(s) 464
AcsI RAATTY 1 cut(s) 137
AcuI CTGAAG 1 cut(s) 864
AfiI CCNNNNNNNGG 2 cut(s) 445, 704
AgsI TTSAA 5 cut(s) 263, 436, 614, 872, 988
AjnI CCWGG 1 cut(s) 1164
AjuI GAANNNNNNNTTGG 2 cut(s) 1067, 1099
AluBI AGCT 5 cut(s) 92, 842, 848, 1083, 1193
AluI AGCT 5 cut(s) 92, 842, 848, 1083, 1193
Alw26I GTCTC 1 cut(s) 513
AlwI GGATC 1 cut(s) 464
AlwNI CAGNNNCTG 1 cut(s) 95
AoxI GGCC 6 cut(s) 381, 706, 748, 853, 1162, 1172
ApeKI GCWGC 2 cut(s) 118, 811
ApoI RAATTY 1 cut(s) 137
ArsI GACNNNNNNTTYG 2 cut(s) 967, 999
Asp700I GAANNNNTTC 2 cut(s) 139, 290
AspA2I CCTAGG 1 cut(s) 1175
AspS9I GGNCC 3 cut(s) 584, 748, 853
AsuHPI GGTGA 2 cut(s) 839, 1180
AvaII GGWCC 1 cut(s) 584
AvrII CCTAGG 1 cut(s) 1175
BbvI GCAGC 2 cut(s) 130, 823
BccI CCATC 4 cut(s) 722, 1141, 1154, 1174
BciT130I CCWGG 1 cut(s) 1166
BciVI GTATCC 1 cut(s) 83
BcoDI GTCTC 1 cut(s) 513
BfaI CTAG 4 cut(s) 192, 669, 1097, 1176
BfmI CTRYAG 1 cut(s) 991
BfuI GTATCC 1 cut(s) 83
BglII AGATCT 1 cut(s) 240
BisI GCNGC 2 cut(s) 119, 812
BlnI CCTAGG 1 cut(s) 1175
BlsI GCNGC 2 cut(s) 120, 813
Bme1390I CCNGG 1 cut(s) 1166
Bme18I GGWCC 1 cut(s) 584
BmgT120I GGNCC 3 cut(s) 584, 748, 853
BmiI GGNNCC 1 cut(s) 854
BmrFI CCNGG 1 cut(s) 1166
BmsI GCATC 1 cut(s) 907
BplI GAGNNNNNCTC 2 cut(s) 1007, 1039
BpmI CTGGAG 1 cut(s) 675
BsaI GGTCTC 1 cut(s) 513
BsaJI CCNNGG 2 cut(s) 384, 1175
BsaXI ACNNNNNCTCC 2 cut(s) 1108, 1138
Bsc4I CCNNNNNNNGG 2 cut(s) 445, 704
Bse1I ACTGG 1 cut(s) 868
BseBI CCWGG 1 cut(s) 1166
BseDI CCNNGG 2 cut(s) 384, 1175
BseGI GGATG 4 cut(s) 733, 910, 1156, 1185
BseLI CCNNNNNNNGG 2 cut(s) 445, 704
BseMII CTCAG 1 cut(s) 39
BseNI ACTGG 1 cut(s) 868
BseXI GCAGC 2 cut(s) 130, 823
BshFI GGCC 6 cut(s) 383, 708, 750, 855, 1164, 1174
BslFI GGGAC 2 cut(s) 29, 988
BslI CCNNNNNNNGG 2 cut(s) 445, 704
BsmAI GTCTC 1 cut(s) 513
BsmFI GGGAC 2 cut(s) 29, 988
BsnI GGCC 6 cut(s) 383, 708, 750, 855, 1164, 1174
Bso31I GGTCTC 1 cut(s) 513
Bsp143I GATC 5 cut(s) 240, 337, 456, 681, 995
BspACI CCGC 1 cut(s) 878
BspANI GGCC 6 cut(s) 383, 708, 750, 855, 1164, 1174
BspCNI CTCAG 1 cut(s) 40
BspLI GGNNCC 1 cut(s) 854
BspPI GGATC 1 cut(s) 464
BspTNI GGTCTC 1 cut(s) 513
BsrI ACTGG 1 cut(s) 868
BssECI CCNNGG 2 cut(s) 384, 1175
BssMI GATC 5 cut(s) 240, 337, 456, 681, 995
BssT1I CCWWGG 2 cut(s) 384, 1175
Bst2UI CCWGG 1 cut(s) 1166
Bst4CI ACNGT 2 cut(s) 485, 992
BstC8I GCNNGC 1 cut(s) 840
BstDEI CTNAG 3 cut(s) 48, 735, 1069
BstENI CCTNNNNNAGG 1 cut(s) 702
BstF5I GGATG 4 cut(s) 733, 910, 1156, 1185
BstKTI GATC 5 cut(s) 243, 340, 459, 684, 998
BstMAI GTCTC 1 cut(s) 513
BstMBI GATC 5 cut(s) 240, 337, 456, 681, 995
BstMWI GCNNNNNNNGC 1 cut(s) 895
BstNI CCWGG 1 cut(s) 1166
BstSCI CCNGG 1 cut(s) 1164
BstSFI CTRYAG 1 cut(s) 991
BstV1I GCAGC 2 cut(s) 130, 823
BstX2I RGATCY 1 cut(s) 240
BstYI RGATCY 1 cut(s) 240
BsuI GTATCC 1 cut(s) 83
BsuRI GGCC 6 cut(s) 383, 708, 750, 855, 1164, 1174
BtsCI GGATG 4 cut(s) 733, 910, 1156, 1185
BtsI GCAGTG 2 cut(s) 459, 1211
BtsIMutI CAGTG 2 cut(s) 459, 1211
Cac8I GCNNGC 1 cut(s) 840
CaiI CAGNNNCTG 1 cut(s) 95
Cfr13I GGNCC 3 cut(s) 584, 748, 853
CviAII CATG 1 cut(s) 304
DdeI CTNAG 3 cut(s) 48, 735, 1069
DpnI GATC 5 cut(s) 242, 339, 458, 683, 997
DpnII GATC 5 cut(s) 240, 337, 456, 681, 995
DraI TTTAAA 2 cut(s) 580, 715
Eco130I CCWWGG 2 cut(s) 384, 1175
Eco147I AGGCCT 1 cut(s) 1174
Eco31I GGTCTC 1 cut(s) 513
Eco47I GGWCC 1 cut(s) 584
Eco57I CTGAAG 1 cut(s) 864
EcoNI CCTNNNNNAGG 1 cut(s) 702
EcoO109I RGGNCCY 2 cut(s) 584, 853
EcoRII CCWGG 1 cut(s) 1164
EcoT14I CCWWGG 2 cut(s) 384, 1175
ErhI CCWWGG 2 cut(s) 384, 1175
FaeI CATG 1 cut(s) 307
FalI AAGNNNNNCTT 2 cut(s) 1067, 1099
FaqI GGGAC 2 cut(s) 29, 988
FatI CATG 1 cut(s) 303
Fnu4HI GCNGC 2 cut(s) 119, 812
FokI GGATG 4 cut(s) 740, 917, 1163, 1192
Fsp4HI GCNGC 2 cut(s) 119, 812
FspBI CTAG 4 cut(s) 192, 669, 1097, 1176
GluI GCNGC 2 cut(s) 119, 812
GsuI CTGGAG 1 cut(s) 675
HaeIII GGCC 6 cut(s) 383, 708, 750, 855, 1164, 1174
Hin1II CATG 1 cut(s) 307
HindIII AAGCTT 1 cut(s) 846
HphI GGTGA 2 cut(s) 839, 1180
Hpy188I TCNGA 5 cut(s) 231, 296, 916, 945, 981
Hpy188III TCNNGA 4 cut(s) 47, 192, 654, 902
HpyAV CCTTC 4 cut(s) 198, 291, 443, 779
HpyCH4III ACNGT 2 cut(s) 485, 992
HpyCH4V TGCA 7 cut(s) 375, 424, 798, 811, 838, 889, 1107
HpyF10VI GCNNNNNNNGC 1 cut(s) 895
HpyF3I CTNAG 3 cut(s) 48, 735, 1069
Hsp92II CATG 1 cut(s) 307
Kzo9I GATC 5 cut(s) 240, 337, 456, 681, 995
LmnI GCTCC 1 cut(s) 1028
Lsp1109I GCAGC 2 cut(s) 130, 823
LweI GCATC 1 cut(s) 907
MaeI CTAG 4 cut(s) 192, 669, 1097, 1176
MaeIII GTNAC 4 cut(s) 169, 415, 859, 1186
MalI GATC 5 cut(s) 242, 339, 458, 683, 997
MboI GATC 5 cut(s) 240, 337, 456, 681, 995
MboII GAAGA 4 cut(s) 17, 235, 602, 703
MfeI CAATTG 2 cut(s) 319, 512
MflI RGATCY 1 cut(s) 240
MluCI AATT 7 cut(s) 7, 137, 319, 502, 512, 873, 939
MlyI GAGTC 2 cut(s) 970, 1025
MmeI TCCRAC 1 cut(s) 668
MroXI GAANNNNTTC 2 cut(s) 139, 290
MseI TTAA 6 cut(s) 501, 579, 714, 720, 894, 1029
MslI CAYNNNNRTG 1 cut(s) 903
MspR9I CCNGG 1 cut(s) 1166
MunI CAATTG 2 cut(s) 319, 512
MvaI CCWGG 1 cut(s) 1166
MwoI GCNNNNNNNGC 1 cut(s) 895
NdeII GATC 5 cut(s) 240, 337, 456, 681, 995
NlaIII CATG 1 cut(s) 307
NlaIV GGNNCC 1 cut(s) 854
NmuCI GTSAC 1 cut(s) 859
PceI AGGCCT 1 cut(s) 1174
PdmI GAANNNNTTC 2 cut(s) 139, 290
PfeI GAWTC 8 cut(s) 214, 291, 347, 659, 911, 917, 1006, 1135
PkrI GCNGC 2 cut(s) 120, 813
PleI GAGTC 2 cut(s) 970, 1024
PpsI GAGTC 2 cut(s) 970, 1024
PpuMI RGGWCCY 1 cut(s) 584
Psp5II RGGWCCY 1 cut(s) 584
Psp6I CCWGG 1 cut(s) 1164
PspGI CCWGG 1 cut(s) 1164
PspN4I GGNNCC 1 cut(s) 854
PspPI GGNCC 3 cut(s) 584, 748, 853
PspPPI RGGWCCY 1 cut(s) 584
PstNI CAGNNNCTG 1 cut(s) 95
PsuI RGATCY 1 cut(s) 240
RseI CAYNNNNRTG 1 cut(s) 903
SaqAI TTAA 6 cut(s) 501, 579, 714, 720, 894, 1029
SatI GCNGC 2 cut(s) 119, 812
Sau3AI GATC 5 cut(s) 240, 337, 456, 681, 995
Sau96I GGNCC 3 cut(s) 584, 748, 853
SchI GAGTC 2 cut(s) 970, 1025
ScrFI CCNGG 1 cut(s) 1166
SfaNI GCATC 1 cut(s) 907
SfcI CTRYAG 1 cut(s) 991
SinI GGWCC 1 cut(s) 584
SmiMI CAYNNNNRTG 1 cut(s) 903
Sse9I AATT 7 cut(s) 7, 137, 319, 502, 512, 873, 939
SseBI AGGCCT 1 cut(s) 1174
SsiI CCGC 1 cut(s) 878
SspMI CTAG 4 cut(s) 192, 669, 1097, 1176
StuI AGGCCT 1 cut(s) 1174
StyD4I CCNGG 1 cut(s) 1164
StyI CCWWGG 2 cut(s) 384, 1175
TaaI ACNGT 2 cut(s) 485, 992
TasI AATT 7 cut(s) 7, 137, 319, 502, 512, 873, 939
TfiI GAWTC 8 cut(s) 214, 291, 347, 659, 911, 917, 1006, 1135
Tru1I TTAA 6 cut(s) 501, 579, 714, 720, 894, 1029
Tru9I TTAA 6 cut(s) 501, 579, 714, 720, 894, 1029
TscAI CASTG 2 cut(s) 466, 1211
TseFI GTSAC 1 cut(s) 859
TseI GCWGC 2 cut(s) 118, 811
Tsp45I GTSAC 1 cut(s) 859
TspDTI ATGAA 7 cut(s) 347, 360, 526, 798, 1019, 1028, 1148
TspGWI ACGGA 1 cut(s) 1116
TspRI CASTG 2 cut(s) 466, 1211
VpaK11BI GGWCC 1 cut(s) 584
XagI CCTNNNNNAGG 1 cut(s) 702
XapI RAATTY 1 cut(s) 137
XbaI TCTAGA 1 cut(s) 191
XcmI CCANNNNNNNNNTGG 1 cut(s) 758
XmaJI CCTAGG 1 cut(s) 1175
XmnI GAANNNNTTC 2 cut(s) 139, 290
XspI CTAG 4 cut(s) 192, 669, 1097, 1176
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.