RchiOBHm_Chr3g0484711

ribonuclease H protein At1g65750

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000492
Physical Location & Seq
Reverse (-)
31096380 .. 31108666
12287 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44942

Sequence Viewer

Length: 840 bp
ATGGCAGAATTTCACACAGACGGAGTTGTGAATAAGGTGACGAATGAGACATACATCTGCCTTATACCAAAGAAAGCAAATTCCCTAAAAGTGGGGGATTACAGACCTATTAGCTTGATAACAAGCTTATATAAAATTATTGCAAAGTTATTAGCTTGGAGATTGAGAGAGGTTTTAAGTGACACCATTTCTGGTGTCCAGGGCGCTTTCATAAGAGGGAGACAAATATTAGATGCAGTTTTGGTGGCTAACGAAGTGGTTGATGAGACAAGGAAGAAGAAGAAAGAGGGTCTGGTGTTCAAAATTGACTTTGAGAAAGCTAAAGGCTTTGGAGACAGATGGAGAAAATGGATAGGGGGTTGTCTGAGGTCAGCAAATTTTTCTATTCTGATAAATGGGAGACCAAGAGGAAAATTCGATGCTTCTCGGGGATTAAGGCAAGGTGACCCCTTATCACCTTTTCTTTTTACCCTAGTGGTGTATGTCCTGGATAGACTTATGGAGAGAGCAAGAGATTGTAGACTAATTGAAGGCCTGGTAGTCGGGAGGGAAGAGGTTGAAATCACTCATCTGCAATTCGCTGATGATACAATTTTCTTTTTGAAGGATGATGACCAGAATTGGAATAATTTAAACATGGTCCTAGAAAGTTTCTGTTTGTTTTCAGGGCTGAAAATCAATAAATCAAAATGCTCCGTAGTTGGAATAAATACTGAGGCTGGGAGATTAGAAAGGATGGCTGATGAACAAGGCTGTGAGATTGGAGTTTGGCCTATGAAATACCTGGGCCTTCCCTTAGGTGGTAACCCAAGCAAGCCTCATTTTGGAACCCAGTTGTAG
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

279

Amino Acids

31.49

Weight (kDa)

9.07

Isoelectric Point (pI)

22.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 22 - 265 2.1e-27 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0000492)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG01250
fragaria_vesca FvH4_1g20711 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g28252 FvH4_3g31041 FvH4_4g00611 FvH4_5g15581 FvH4_5g21911 FvH4_5g35851 FvH4_6g24331 FvH4_6g34741
malus_domestica MD07G1291800.v1.1 MD09G1222500.v1.1
prunus_persica Prupe.1G162400_v2.0.a1 Prupe.1G210400_v2.0.a1 Prupe.6G308200_v2.0.a1
pyrus_communis pycom05g02580 pycom12g09210 pycom12g15310 pycom16g09140
rosa_chinensis RchiOBHm_Chr3g0484711 RchiOBHm_Chr4g0393411 RchiOBHm_Chr4g0397521 RchiOBHm_Chr4g0404571 RchiOBHm_Chr4g0418351 RchiOBHm_Chr5g0060311 RchiOBHm_Chr6g0301391 RchiOBHm_Chr7g0229871
rosa_laevigata RLG00000007836 RLG00000025145
rosa_multiflora Rmu_co8327795.1_g000001 Rmu_sc0000469.1_g000005 Rmu_sc0000498.1_g000050 Rmu_sc0000558.1_g000007 Rmu_sc0000693.1_g000082 Rmu_sc0000711.1_g000011 Rmu_sc0000814.1_g000039 Rmu_sc0001366.1_g000005 Rmu_sc0002205.1_g000004 Rmu_sc0002283.1_g000086 Rmu_sc0002406.1_g000011 Rmu_sc0002735.1_g000022 Rmu_sc0003545.1_g000004 Rmu_sc0004406.1_g000009 Rmu_sc0006301.1_g000009 Rmu_sc0006754.1_g000004 Rmu_sc0007324.1_g000010 Rmu_sc0008199.1_g000002 Rmu_sc0008563.1_g000009 Rmu_sc0009777.1_g000007 Rmu_sc0010560.1_g000011 Rmu_sc0011095.1_g000004 Rmu_sc0012101.1_g000004 Rmu_sc0014150.1_g000009 Rmu_sc0020270.1_g000004 Rmu_sc0021327.1_g000001 Rmu_sc0031326.1_g000003 Rmu_ssc0000116.1_g000050 Rmu_ssc0000368.1_g000056
rosa_roxburghii Rroxscaffold_2G00110080 Rroxscaffold_2G00141700 Rroxscaffold_2G00142400
rosa_rugosa Rorug01G0104400 Rorug01G0204500 Rorug02G0225600 Rorug02G0262000.1 Rorug02G0526700 Rorug03G0082000 Rorug03G0102500.1 Rorug04G0106400 Rorug04G0200200 Rorug05G0021900.1 Rorug05G0240000 Rorug05G0326500 Rorug05G0529200 Rorug07G0136100
rosa_samantha Rh1AG352100 Rh6DG494100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 520
AcsI RAATTY 4 cut(s) 8, 79, 376, 413
AfiI CCNNNNNNNGG 3 cut(s) 91, 800, 824
AgsI TTSAA 4 cut(s) 301, 530, 560, 604
AjnI CCWGG 4 cut(s) 198, 486, 534, 783
AluBI AGCT 4 cut(s) 114, 126, 155, 320
AluI AGCT 4 cut(s) 114, 126, 155, 320
Alw26I GTCTC 5 cut(s) 41, 214, 260, 327, 394
Ama87I CYCGRG 1 cut(s) 426
AoxI GGCC 3 cut(s) 532, 770, 787
ApoI RAATTY 4 cut(s) 8, 79, 376, 413
AspLEI GCGC 1 cut(s) 206
AspS9I GGNCC 2 cut(s) 640, 787
AsuHPI GGTGA 3 cut(s) 49, 447, 455
AvaI CYCGRG 1 cut(s) 426
AvaII GGWCC 1 cut(s) 640
AxyI CCTNAGG 1 cut(s) 796
BccI CCATC 2 cut(s) 333, 730
BciT130I CCWGG 4 cut(s) 200, 488, 536, 785
BcoDI GTCTC 5 cut(s) 41, 214, 260, 327, 394
BfaI CTAG 2 cut(s) 473, 644
BfoI RGCGCY 1 cut(s) 207
Bme1390I CCNGG 4 cut(s) 200, 488, 536, 785
Bme18I GGWCC 1 cut(s) 640
BmeT110I CYCGRG 1 cut(s) 426
BmgT120I GGNCC 2 cut(s) 640, 787
BmiI GGNNCC 1 cut(s) 829
BmrFI CCNGG 4 cut(s) 200, 488, 536, 785
BmrI ACTGGG 1 cut(s) 826
BmsI GCATC 2 cut(s) 223, 409
BmuI ACTGGG 1 cut(s) 826
BsaI GGTCTC 1 cut(s) 394
BsaJI CCNNGG 2 cut(s) 199, 784
Bsc4I CCNNNNNNNGG 3 cut(s) 91, 800, 824
Bse1I ACTGG 1 cut(s) 832
Bse21I CCTNAGG 1 cut(s) 796
BseBI CCWGG 4 cut(s) 200, 488, 536, 785
BseDI CCNNGG 2 cut(s) 199, 784
BseGI GGATG 2 cut(s) 613, 741
BseLI CCNNNNNNNGG 3 cut(s) 91, 800, 824
BseMII CTCAG 2 cut(s) 356, 705
BseNI ACTGG 1 cut(s) 832
BseYI CCCAGC 1 cut(s) 719
BshFI GGCC 3 cut(s) 534, 772, 789
BsiHKCI CYCGRG 1 cut(s) 426
BslI CCNNNNNNNGG 3 cut(s) 91, 800, 824
BsmAI GTCTC 5 cut(s) 41, 214, 260, 327, 394
BsnI GGCC 3 cut(s) 534, 772, 789
Bso31I GGTCTC 1 cut(s) 394
BsoBI CYCGRG 1 cut(s) 426
BspANI GGCC 3 cut(s) 534, 772, 789
BspCNI CTCAG 2 cut(s) 357, 706
BspLI GGNNCC 1 cut(s) 829
BspTNI GGTCTC 1 cut(s) 394
BsrI ACTGG 1 cut(s) 832
BssECI CCNNGG 2 cut(s) 199, 784
Bst2UI CCWGG 4 cut(s) 200, 488, 536, 785
Bst6I CTCTTC 1 cut(s) 546
BstC8I GCNNGC 1 cut(s) 815
BstDEI CTNAG 3 cut(s) 365, 714, 796
BstEII GGTNACC 2 cut(s) 443, 803
BstF5I GGATG 2 cut(s) 613, 741
BstH2I RGCGCY 1 cut(s) 207
BstHHI GCGC 1 cut(s) 206
BstMAI GTCTC 5 cut(s) 41, 214, 260, 327, 394
BstNI CCWGG 4 cut(s) 200, 488, 536, 785
BstPI GGTNACC 2 cut(s) 443, 803
BstSCI CCNGG 4 cut(s) 198, 486, 534, 783
Bsu36I CCTNAGG 1 cut(s) 796
BsuRI GGCC 3 cut(s) 534, 772, 789
BtsCI GGATG 2 cut(s) 613, 741
Cac8I GCNNGC 1 cut(s) 815
CfoI GCGC 1 cut(s) 206
Cfr13I GGNCC 2 cut(s) 640, 787
CviAII CATG 1 cut(s) 637
DdeI CTNAG 3 cut(s) 365, 714, 796
DraI TTTAAA 1 cut(s) 633
Eam1104I CTCTTC 1 cut(s) 546
EarI CTCTTC 1 cut(s) 546
Eco147I AGGCCT 1 cut(s) 534
Eco31I GGTCTC 1 cut(s) 394
Eco47I GGWCC 1 cut(s) 640
Eco81I CCTNAGG 1 cut(s) 796
Eco88I CYCGRG 1 cut(s) 426
Eco91I GGTNACC 2 cut(s) 443, 803
EcoO65I GGTNACC 2 cut(s) 443, 803
EcoRII CCWGG 4 cut(s) 198, 486, 534, 783
FaeI CATG 1 cut(s) 640
FaiI YATR 9 cut(s) 52, 65, 130, 132, 212, 483, 500, 638, 776
FatI CATG 1 cut(s) 636
FblI GTMKAC 1 cut(s) 520
FokI GGATG 2 cut(s) 620, 748
FspBI CTAG 2 cut(s) 473, 644
GlaI GCGC 1 cut(s) 205
GsaI CCCAGC 1 cut(s) 723
HaeII RGCGCY 1 cut(s) 207
HaeIII GGCC 3 cut(s) 534, 772, 789
HhaI GCGC 1 cut(s) 206
Hin1II CATG 1 cut(s) 640
Hin6I GCGC 1 cut(s) 204
HinP1I GCGC 1 cut(s) 204
HindIII AAGCTT 1 cut(s) 124
HphI GGTGA 3 cut(s) 49, 447, 455
Hpy166II GTNNAC 1 cut(s) 521
Hpy188I TCNGA 2 cut(s) 366, 390
Hpy188III TCNNGA 1 cut(s) 544
Hpy8I GTNNAC 1 cut(s) 521
HpyAV CCTTC 3 cut(s) 524, 598, 800
HpyCH4V TGCA 3 cut(s) 143, 236, 574
HpyF3I CTNAG 3 cut(s) 365, 714, 796
Hsp92II CATG 1 cut(s) 640
HspAI GCGC 1 cut(s) 204
LmnI GCTCC 1 cut(s) 698
LweI GCATC 2 cut(s) 223, 409
MaeI CTAG 2 cut(s) 473, 644
MaeIII GTNAC 4 cut(s) 37, 179, 443, 803
MboII GAAGA 4 cut(s) 286, 289, 292, 563
MmeI TCCRAC 1 cut(s) 682
MnlI CCTC 9 cut(s) 163, 209, 280, 360, 401, 540, 547, 709, 828
MseI TTAA 3 cut(s) 176, 434, 632
MspR9I CCNGG 4 cut(s) 200, 488, 536, 785
MvaI CCWGG 4 cut(s) 200, 488, 536, 785
NlaIII CATG 1 cut(s) 640
NlaIV GGNNCC 1 cut(s) 829
NmuCI GTSAC 3 cut(s) 37, 179, 443
PceI AGGCCT 1 cut(s) 534
PfoI TCCNGGA 1 cut(s) 486
Psp6I CCWGG 4 cut(s) 198, 486, 534, 783
PspEI GGTNACC 2 cut(s) 443, 803
PspFI CCCAGC 1 cut(s) 719
PspGI CCWGG 4 cut(s) 198, 486, 534, 783
PspN4I GGNNCC 1 cut(s) 829
PspPI GGNCC 2 cut(s) 640, 787
SaqAI TTAA 3 cut(s) 176, 434, 632
Sau96I GGNCC 2 cut(s) 640, 787
ScrFI CCNGG 4 cut(s) 200, 488, 536, 785
SfaNI GCATC 2 cut(s) 223, 409
SinI GGWCC 1 cut(s) 640
SseBI AGGCCT 1 cut(s) 534
SspI AATATT 1 cut(s) 228
SspMI CTAG 2 cut(s) 473, 644
StuI AGGCCT 1 cut(s) 534
StyD4I CCNGG 4 cut(s) 198, 486, 534, 783
TaqI TCGA 1 cut(s) 417
Tru1I TTAA 3 cut(s) 176, 434, 632
Tru9I TTAA 3 cut(s) 176, 434, 632
TseFI GTSAC 3 cut(s) 37, 179, 443
Tsp45I GTSAC 3 cut(s) 37, 179, 443
TspDTI ATGAA 3 cut(s) 199, 759, 791
TspGWI ACGGA 2 cut(s) 36, 685
VpaK11BI GGWCC 1 cut(s) 640
XapI RAATTY 4 cut(s) 8, 79, 376, 413
XmiI GTMKAC 1 cut(s) 520
XspI CTAG 2 cut(s) 473, 644
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.