RchiOBHm_Chr1g0347181

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000194
Physical Location & Seq
Forward (+)
39814123 .. 39817545
3423 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ57333

Sequence Viewer

Length: 897 bp
ATGAATTGTGTCCGAACTTCCTCCCTTTCTGTGCTTCTTAATGGGAAACCAGGGCCTTTTTTCAAACCAACCCGTGGTCTCAGACAAGGAGATCCTTTGTCACCTTTTCTTTTTCTTTTTGCTAATGTCATTCTTTCAAAAATGGTCATTAAATGTTGCAGATGCTCCCTACTGAAACCTGTGACTATTGGTCCACAAGAATTAGGAATCAGTCATCTTTTCTTTGCAGATGACTCCCTGTTCTTCCTTCAAGCCACTCTACAGAACTGTGAAATGTTGTCTGATCTCCTCCATACTTATTGTGTAGCTTCGGGGCAACTGATAAATGTGGACAAATCTTCTATTTTTTTCAGTCCAAATACACAACCTGAAATTGTTCATTTGTTGAGTGCTGTTATGCAAATCCCAGTTGTTTTTGATCCAGGAAAATACTTGGGGCTTCCAACCTTCTGGCATCGATCAAAAAAGGCTGCTCTTGGTTTTATCAAGGACTCAATATCCAAGAAAGTTCGGGGATGGAAACAGGCTACTCTTAGTCAAGCTGGGAAAGAAACTCTTATCAAGGCTATTTCCACGGCTATCCCAGCTTATCCTATGGCATGTTTTAAATTTCCAGTCTCTCTTTGCACTCAATTGAATGGTATTTTGGCAAATTTCTGGTGGGGAAATCAAGATTCTAATGGACTACATTGGAAGTCTTGGAATTTCCTAAGTTTGCCTAAACAAGACGGTGGAATGGGATTCAGAAATTTGGTAGAATTCAATGATTCTTTGCTGGCTAAACAAGCTTGGAGACTTACTCACAATCCCACTTCTTTATGGGCTCGTGTCTTGCAGCAACTGTATTTTCCATCGACTTCTTTTCGTTTCGCAAGAAAAGGTGCTTCAGCTTCTTAG
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

298

Amino Acids

33.26

Weight (kDa)

9.72

Isoelectric Point (pI)

34.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 14 - 146 9.6e-08 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0000194)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G34320 AT4G29090 AT5G42965
fragaria_vesca FvH4_1g19471 FvH4_1g29471 FvH4_1g29601 FvH4_2g04611 FvH4_2g05763 FvH4_2g11451 FvH4_2g11841 FvH4_3g10391 FvH4_3g21491 FvH4_3g21492 FvH4_3g32111 FvH4_3g35051 FvH4_4g06793 FvH4_5g08844 FvH4_5g15942 FvH4_5g18751 FvH4_5g27367 FvH4_6g11612 FvH4_6g20242 FvH4_6g27671 FvH4_6g31921 FvH4_7g32463
malus_domestica MD06G1107000.v1.1 MD07G1135800.v1.1 MD08G1205700.v1.1
prunus_persica Prupe.1G202000_v2.0.a1 Prupe.2G049100_v2.0.a1 Prupe.2G060500_v2.0.a1 Prupe.3G120300_v2.0.a1 Prupe.3G135000_v2.0.a1 Prupe.6G087800_v2.0.a1 Prupe.6G158500_v2.0.a1 Prupe.6G353900_v2.0.a1 Prupe.7G008600_v2.0.a1 Prupe.8G090500_v2.0.a1
pyrus_communis pycom01g21690 pycom02g19910 pycom04g18080 pycom07g08600 pycom07g18710 pycom07g26560 pycom08g03130 pycom08g13950 pycom09g06380 pycom10g13390 pycom10g22280 pycom11g04440 pycom11g10940 pycom12g04710 pycom13g08790 pycom15g31740 pycom17g14740 pycom17g24980
rosa_chinensis RchiOBHm_Chr1g0327801 RchiOBHm_Chr1g0347181 RchiOBHm_Chr1g0348821 RchiOBHm_Chr2g0157831 RchiOBHm_Chr5g0040851 RchiOBHm_Chr6g0249781 RchiOBHm_Chr7g0208461 RchiOBHm_Chr7g0210911 RchiOBHm_Chr7g0219141
rosa_laevigata RLG00000034326
rosa_multiflora Rmu_co8140276.1_g000001 Rmu_co8282095.1_g000001 Rmu_co8303311.1_g000001 Rmu_co8314215.1_g000001 Rmu_co8345435.1_g000001 Rmu_co8461745.1_g000001 Rmu_sc0000315.1_g000040 Rmu_sc0000487.1_g000014 Rmu_sc0000690.1_g000002 Rmu_sc0000808.1_g000001 Rmu_sc0000938.1_g000009 Rmu_sc0001260.1_g000002 Rmu_sc0001534.1_g000008 Rmu_sc0001669.1_g000003 Rmu_sc0001685.1_g000050 Rmu_sc0001838.1_g000007 Rmu_sc0002193.1_g000025 Rmu_sc0002308.1_g000058 Rmu_sc0002322.1_g000018 Rmu_sc0002529.1_g000008 Rmu_sc0002531.1_g000043 Rmu_sc0002754.1_g000022 Rmu_sc0002902.1_g000055 Rmu_sc0003627.1_g000005 Rmu_sc0003743.1_g000003 Rmu_sc0003765.1_g000016 Rmu_sc0003941.1_g000020 Rmu_sc0004038.1_g000011 Rmu_sc0004329.1_g000010 Rmu_sc0004476.1_g000002 Rmu_sc0004904.1_g000022 Rmu_sc0004988.1_g000017 Rmu_sc0005217.1_g000006 Rmu_sc0005257.1_g000010 Rmu_sc0005285.1_g000008 Rmu_sc0005687.1_g000001 Rmu_sc0006380.1_g000020 Rmu_sc0006922.1_g000004 Rmu_sc0007398.1_g000007 Rmu_sc0008279.1_g000019 Rmu_sc0009139.1_g000004 Rmu_sc0009158.1_g000001 Rmu_sc0010099.1_g000002 Rmu_sc0019043.1_g000001 Rmu_sc0022037.1_g000001 Rmu_sc0023291.1_g000001 Rmu_sc0031928.1_g000001 Rmu_sc0034436.1_g000002 Rmu_ssc0000126.1_g000001 Rmu_ssc0000151.1_g000016 Rmu_ssc0000152.1_g000009 Rmu_ssc0000395.1_g000031
rosa_roxburghii Rroxscaffold_1G00056570 Rroxscaffold_1G00058460 Rroxscaffold_2G00106120 Rroxscaffold_2G00106260 Rroxscaffold_6G00399080
rosa_rugosa Rorug02G0173300 Rorug02G0225600 Rorug03G0083300 Rorug03G0104900 Rorug04G0256500 Rorug05G0342600 Rorug06G0006200 Rorug06G0095200 Rorug06G0095600 Rorug06G0111500 Rorug07G0001200 Rorug07G0183100 Rorug07G0183100 Rorug07G0209000
rosa_samantha Rh2DG065400 Rh3DG315900 Rh4AG106100 Rh4BG362100 Rh4CG030200 Rh4DG239000 Rh4DG294000 Rh6DG304800 Rh7DG149500
rosa_wichuraiana Rw1G018070 Rw1G021220 Rw1G021820 Rw1G026430 Rw2G050800 Rw3G023330 Rw6G010050 Rw6G010440 Rw7G031930 Rw7G033860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 74
AclWI GGATC 2 cut(s) 86, 413
AcsI RAATTY 5 cut(s) 608, 652, 703, 748, 758
AcuI CTGAAG 1 cut(s) 870
AfiI CCNNNNNNNGG 1 cut(s) 74
AgsI TTSAA 5 cut(s) 64, 138, 251, 637, 763
AhdI GACNNNNNGTC 1 cut(s) 189
AjnI CCWGG 2 cut(s) 49, 421
AjuI GAANNNNNNNTTGG 2 cut(s) 629, 661
AluBI AGCT 5 cut(s) 308, 542, 587, 788, 890
AluI AGCT 5 cut(s) 308, 542, 587, 788, 890
Alw26I GTCTC 3 cut(s) 83, 622, 787
AlwI GGATC 2 cut(s) 86, 413
AlwNI CAGNNNCTG 1 cut(s) 841
AoxI GGCC 1 cut(s) 53
ApeKI GCWGC 2 cut(s) 470, 835
ApoI RAATTY 5 cut(s) 608, 652, 703, 748, 758
Asp700I GAANNNNTTC 1 cut(s) 375
AspS9I GGNCC 2 cut(s) 53, 191
AsuHPI GGTGA 1 cut(s) 93
AvaII GGWCC 1 cut(s) 191
BanII GRGCYC 1 cut(s) 826
BauI CACGAG 1 cut(s) 825
BbvI GCAGC 2 cut(s) 457, 847
BccI CCATC 2 cut(s) 510, 859
BceAI ACGGC 1 cut(s) 591
BciT130I CCWGG 2 cut(s) 51, 423
BcoDI GTCTC 3 cut(s) 83, 622, 787
BfmI CTRYAG 1 cut(s) 260
BisI GCNGC 2 cut(s) 471, 836
BlsI GCNGC 2 cut(s) 472, 837
Bme1390I CCNGG 2 cut(s) 51, 423
Bme18I GGWCC 1 cut(s) 191
BmeRI GACNNNNNGTC 1 cut(s) 189
BmgT120I GGNCC 2 cut(s) 53, 191
BmrFI CCNGG 2 cut(s) 51, 423
BmrI ACTGGG 1 cut(s) 401
BmsI GCATC 2 cut(s) 152, 463
BmuI ACTGGG 1 cut(s) 401
BplI GAGNNNNNCTC 2 cut(s) 784, 816
Bsa29I ATCGAT 1 cut(s) 457
BsaI GGTCTC 1 cut(s) 83
BsaJI CCNNGG 3 cut(s) 50, 73, 573
Bsc4I CCNNNNNNNGG 1 cut(s) 74
Bse1I ACTGG 2 cut(s) 407, 614
BseBI CCWGG 2 cut(s) 51, 423
BseCI ATCGAT 1 cut(s) 457
BseDI CCNNGG 3 cut(s) 50, 73, 573
BseGI GGATG 1 cut(s) 521
BseLI CCNNNNNNNGG 1 cut(s) 74
BseMII CTCAG 1 cut(s) 94
BseNI ACTGG 2 cut(s) 407, 614
BseRI GAGGAG 1 cut(s) 278
BseXI GCAGC 2 cut(s) 457, 847
BseYI CCCAGC 2 cut(s) 542, 583
BshFI GGCC 1 cut(s) 55
BshVI ATCGAT 1 cut(s) 457
BslI CCNNNNNNNGG 1 cut(s) 74
BsmAI GTCTC 3 cut(s) 83, 622, 787
BsnI GGCC 1 cut(s) 55
Bso31I GGTCTC 1 cut(s) 83
Bsp1286I GDGCHC 1 cut(s) 826
Bsp143I GATC 4 cut(s) 91, 283, 418, 458
BspANI GGCC 1 cut(s) 55
BspCNI CTCAG 1 cut(s) 93
BspDI ATCGAT 1 cut(s) 457
BspPI GGATC 2 cut(s) 86, 413
BspTNI GGTCTC 1 cut(s) 83
BsrI ACTGG 2 cut(s) 407, 614
BssECI CCNNGG 3 cut(s) 50, 73, 573
BssMI GATC 4 cut(s) 91, 283, 418, 458
BssSI CACGAG 1 cut(s) 825
Bst2BI CACGAG 1 cut(s) 825
Bst2UI CCWGG 2 cut(s) 51, 423
Bst4CI ACNGT 3 cut(s) 269, 731, 843
BstC8I GCNNGC 1 cut(s) 777
BstDEI CTNAG 4 cut(s) 80, 533, 710, 894
BstDSI CCRYGG 2 cut(s) 73, 573
BstF5I GGATG 1 cut(s) 521
BstKTI GATC 4 cut(s) 94, 286, 421, 461
BstMAI GTCTC 3 cut(s) 83, 622, 787
BstMBI GATC 4 cut(s) 91, 283, 418, 458
BstMWI GCNNNNNNNGC 2 cut(s) 584, 785
BstNI CCWGG 2 cut(s) 51, 423
BstNSI RCATGY 1 cut(s) 603
BstSCI CCNGG 2 cut(s) 49, 421
BstSFI CTRYAG 1 cut(s) 260
BstV1I GCAGC 2 cut(s) 457, 847
BstX2I RGATCY 1 cut(s) 91
BstXI CCANNNNNNTGG 1 cut(s) 450
BstYI RGATCY 1 cut(s) 91
Bsu15I ATCGAT 1 cut(s) 457
BsuRI GGCC 1 cut(s) 55
BsuTUI ATCGAT 1 cut(s) 457
BtgI CCRYGG 2 cut(s) 73, 573
BtsCI GGATG 1 cut(s) 521
Cac8I GCNNGC 1 cut(s) 777
CaiI CAGNNNCTG 1 cut(s) 841
Cfr13I GGNCC 2 cut(s) 53, 191
ClaI ATCGAT 1 cut(s) 457
CviAII CATG 1 cut(s) 600
DdeI CTNAG 4 cut(s) 80, 533, 710, 894
DpnI GATC 4 cut(s) 93, 285, 420, 460
DpnII GATC 4 cut(s) 91, 283, 418, 458
DraI TTTAAA 1 cut(s) 607
DriI GACNNNNNGTC 1 cut(s) 189
Eam1105I GACNNNNNGTC 1 cut(s) 189
Eco24I GRGCYC 1 cut(s) 826
Eco31I GGTCTC 1 cut(s) 83
Eco47I GGWCC 1 cut(s) 191
Eco57I CTGAAG 1 cut(s) 870
EcoO109I RGGNCCY 1 cut(s) 53
EcoRI GAATTC 1 cut(s) 758
EcoRII CCWGG 2 cut(s) 49, 421
EcoT38I GRGCYC 1 cut(s) 826
FaeI CATG 1 cut(s) 603
FaiI YATR 5 cut(s) 294, 398, 596, 601, 820
FalI AAGNNNNNCTT 2 cut(s) 540, 572
FatI CATG 1 cut(s) 599
Fnu4HI GCNGC 2 cut(s) 471, 836
FokI GGATG 1 cut(s) 528
FriOI GRGCYC 1 cut(s) 826
Fsp4HI GCNGC 2 cut(s) 471, 836
GluI GCNGC 2 cut(s) 471, 836
GsaI CCCAGC 2 cut(s) 546, 587
HaeIII GGCC 1 cut(s) 55
Hin1II CATG 1 cut(s) 603
HindIII AAGCTT 1 cut(s) 786
HinfI GANTC 6 cut(s) 207, 233, 491, 674, 741, 767
HphI GGTGA 1 cut(s) 93
Hpy166II GTNNAC 2 cut(s) 194, 331
Hpy188I TCNGA 4 cut(s) 14, 83, 283, 746
Hpy188III TCNNGA 1 cut(s) 671
Hpy8I GTNNAC 2 cut(s) 194, 331
HpyAV CCTTC 2 cut(s) 257, 457
HpyCH4III ACNGT 3 cut(s) 269, 731, 843
HpyCH4V TGCA 5 cut(s) 159, 227, 400, 627, 835
HpyF10VI GCNNNNNNNGC 2 cut(s) 584, 785
HpyF3I CTNAG 4 cut(s) 80, 533, 710, 894
Hsp92II CATG 1 cut(s) 603
Kzo9I GATC 4 cut(s) 91, 283, 418, 458
LmnI GCTCC 1 cut(s) 170
Lsp1109I GCAGC 2 cut(s) 457, 847
LweI GCATC 2 cut(s) 152, 463
MaeIII GTNAC 2 cut(s) 99, 181
MalI GATC 4 cut(s) 93, 285, 420, 460
MboI GATC 4 cut(s) 91, 283, 418, 458
MboII GAAGA 2 cut(s) 235, 330
MfeI CAATTG 1 cut(s) 632
MflI RGATCY 1 cut(s) 91
MhlI GDGCHC 1 cut(s) 826
MluCI AATT 9 cut(s) 4, 200, 372, 608, 632, 652, 703, 748, 758
MlyI GAGTC 2 cut(s) 227, 485
MmeI TCCRAC 1 cut(s) 467
MnlI CCTC 2 cut(s) 31, 299
MroXI GAANNNNTTC 1 cut(s) 375
MseI TTAA 3 cut(s) 39, 150, 606
MspR9I CCNGG 2 cut(s) 51, 423
MunI CAATTG 1 cut(s) 632
MvaI CCWGG 2 cut(s) 51, 423
MwoI GCNNNNNNNGC 2 cut(s) 584, 785
NdeII GATC 4 cut(s) 91, 283, 418, 458
NlaIII CATG 1 cut(s) 603
NmuCI GTSAC 2 cut(s) 99, 181
NspI RCATGY 1 cut(s) 603
PdmI GAANNNNTTC 1 cut(s) 375
PfeI GAWTC 4 cut(s) 207, 674, 741, 767
PflMI CCANNNNNTGG 1 cut(s) 74
PfoI TCCNGGA 1 cut(s) 421
PkrI GCNGC 2 cut(s) 472, 837
PleI GAGTC 2 cut(s) 227, 485
PpsI GAGTC 2 cut(s) 227, 485
Psp6I CCWGG 2 cut(s) 49, 421
PspFI CCCAGC 2 cut(s) 542, 583
PspGI CCWGG 2 cut(s) 49, 421
PspPI GGNCC 2 cut(s) 53, 191
PstNI CAGNNNCTG 1 cut(s) 841
PsuI RGATCY 1 cut(s) 91
SaqAI TTAA 3 cut(s) 39, 150, 606
SatI GCNGC 2 cut(s) 471, 836
Sau3AI GATC 4 cut(s) 91, 283, 418, 458
Sau96I GGNCC 2 cut(s) 53, 191
SchI GAGTC 2 cut(s) 227, 485
ScrFI CCNGG 2 cut(s) 51, 423
SduI GDGCHC 1 cut(s) 826
SfaNI GCATC 2 cut(s) 152, 463
SfcI CTRYAG 1 cut(s) 260
SinI GGWCC 1 cut(s) 191
Sse9I AATT 9 cut(s) 4, 200, 372, 608, 632, 652, 703, 748, 758
StyD4I CCNGG 2 cut(s) 49, 421
TaaI ACNGT 3 cut(s) 269, 731, 843
TaqI TCGA 2 cut(s) 457, 854
TasI AATT 9 cut(s) 4, 200, 372, 608, 632, 652, 703, 748, 758
TfiI GAWTC 4 cut(s) 207, 674, 741, 767
Tru1I TTAA 3 cut(s) 39, 150, 606
Tru9I TTAA 3 cut(s) 39, 150, 606
TseFI GTSAC 2 cut(s) 99, 181
TseI GCWGC 2 cut(s) 470, 835
Tsp45I GTSAC 2 cut(s) 99, 181
TspDTI ATGAA 2 cut(s) 17, 368
Van91I CCANNNNNTGG 1 cut(s) 74
VpaK11BI GGWCC 1 cut(s) 191
XapI RAATTY 5 cut(s) 608, 652, 703, 748, 758
XceI RCATGY 1 cut(s) 603
XmnI GAANNNNTTC 1 cut(s) 375
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.