RchiOBHm_Chr5g0040021

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000254
Physical Location & Seq
Forward (+)
34731253 .. 34731922
670 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ31855

Sequence Viewer

Length: 534 bp
ATGATCGGTTGGAAGAAACCTAACAGAGGCCACTTTAAACTTAATGTGGATGGTTCTAAGAATGATAAGGGCCAGATAGGTGCTGGTGGAGTTATTAGAAATAATGAAGGTGTTTGGTGCAAGGGTTTTATGCAGCATATTGGTTATGGTGAAGTCTTGCAAGCTGAAGCTTGGGGCCTTGTGACTGGACTTCAAATTGCGGTTGATATGCAGATTAAGCATTTGGATGTGGAATCTGATTCTGCTATTCTCATAAATCTAATTCAGAGTAAGGATATTGATTTACACCCTTTAGGGACTCTAATTTTGAACTGCAGATCATTGATGAATCACTTTGAGTCCTGCTCCATTAAGCATATTCATAGAGAAAGAAATATGGTGGCAGACATCTTAGCGAAGCATAGCTTGGACAACGAACTAGGAGTTTGCAGAATGGACACAAACCCTCCGTTTATGAATCAAGTTTTGATGGATGATATTGATGGCCTGGTGAGGCCTAGGATGGTTGTAACAGCTTCGGTTGAGCAGTGGTAG
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
No domains found.

Protein Analysis

177

Amino Acids

19.82

Weight (kDa)

6.22

Isoelectric Point (pI)

23.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 15 - 134 3.2e-30 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) 200
AcuI CTGAAG 1 cut(s) 186
AfiI CCNNNNNNNGG 1 cut(s) 26
AgsI TTSAA 2 cut(s) 194, 310
AjnI CCWGG 1 cut(s) 486
AjuI GAANNNNNNNTTGG 2 cut(s) 389, 421
AluBI AGCT 4 cut(s) 164, 170, 405, 515
AluI AGCT 4 cut(s) 164, 170, 405, 515
AoxI GGCC 5 cut(s) 28, 70, 175, 484, 494
ApeKI GCWGC 1 cut(s) 133
ArsI GACNNNNNNTTYG 2 cut(s) 289, 321
AspA2I CCTAGG 1 cut(s) 497
AspS9I GGNCC 2 cut(s) 70, 175
AsuHPI GGTGA 2 cut(s) 161, 502
AvrII CCTAGG 1 cut(s) 497
BbvI GCAGC 1 cut(s) 145
BccI CCATC 4 cut(s) 44, 463, 476, 496
BciT130I CCWGG 1 cut(s) 488
BfaI CTAG 2 cut(s) 419, 498
BfmI CTRYAG 1 cut(s) 313
BisI GCNGC 1 cut(s) 134
BlnI CCTAGG 1 cut(s) 497
BlsI GCNGC 1 cut(s) 135
Bme1390I CCNGG 1 cut(s) 488
BmgT120I GGNCC 2 cut(s) 70, 175
BmiI GGNNCC 1 cut(s) 176
BmrFI CCNGG 1 cut(s) 488
BplI GAGNNNNNCTC 2 cut(s) 329, 361
BsaJI CCNNGG 1 cut(s) 497
BsaXI ACNNNNNCTCC 2 cut(s) 430, 460
Bsc4I CCNNNNNNNGG 1 cut(s) 26
Bse1I ACTGG 1 cut(s) 190
BseBI CCWGG 1 cut(s) 488
BseDI CCNNGG 1 cut(s) 497
BseGI GGATG 4 cut(s) 55, 232, 478, 507
BseLI CCNNNNNNNGG 1 cut(s) 26
BseNI ACTGG 1 cut(s) 190
BseXI GCAGC 1 cut(s) 145
BshFI GGCC 5 cut(s) 30, 72, 177, 486, 496
BslFI GGGAC 1 cut(s) 310
BslI CCNNNNNNNGG 1 cut(s) 26
BsmFI GGGAC 1 cut(s) 310
BsnI GGCC 5 cut(s) 30, 72, 177, 486, 496
Bsp143I GATC 2 cut(s) 3, 317
BspACI CCGC 1 cut(s) 200
BspANI GGCC 5 cut(s) 30, 72, 177, 486, 496
BspLI GGNNCC 1 cut(s) 176
BspMAI CTGCAG 1 cut(s) 317
BsrI ACTGG 1 cut(s) 190
BssECI CCNNGG 1 cut(s) 497
BssMI GATC 2 cut(s) 3, 317
BssT1I CCWWGG 1 cut(s) 497
Bst2UI CCWGG 1 cut(s) 488
BstC8I GCNNGC 1 cut(s) 162
BstDEI CTNAG 2 cut(s) 57, 391
BstENI CCTNNNNNAGG 1 cut(s) 24
BstF5I GGATG 4 cut(s) 55, 232, 478, 507
BstKTI GATC 2 cut(s) 6, 320
BstMBI GATC 2 cut(s) 3, 317
BstMWI GCNNNNNNNGC 1 cut(s) 217
BstNI CCWGG 1 cut(s) 488
BstSCI CCNGG 1 cut(s) 486
BstSFI CTRYAG 1 cut(s) 313
BstV1I GCAGC 1 cut(s) 145
BsuRI GGCC 5 cut(s) 30, 72, 177, 486, 496
BtsCI GGATG 4 cut(s) 55, 232, 478, 507
BtsI GCAGTG 1 cut(s) 533
BtsIMutI CAGTG 1 cut(s) 533
Cac8I GCNNGC 1 cut(s) 162
Cfr13I GGNCC 2 cut(s) 70, 175
CviJI RGCY 9 cut(s) 30, 72, 164, 170, 177, 405, 486, 496, 515
CviKI_1 RGCY 9 cut(s) 30, 72, 164, 170, 177, 405, 486, 496, 515
DdeI CTNAG 2 cut(s) 57, 391
DpnI GATC 2 cut(s) 5, 319
DpnII GATC 2 cut(s) 3, 317
DraI TTTAAA 1 cut(s) 37
Eco130I CCWWGG 1 cut(s) 497
Eco147I AGGCCT 1 cut(s) 496
Eco57I CTGAAG 1 cut(s) 186
EcoNI CCTNNNNNAGG 1 cut(s) 24
EcoO109I RGGNCCY 1 cut(s) 175
EcoRII CCWGG 1 cut(s) 486
EcoT14I CCWWGG 1 cut(s) 497
ErhI CCWWGG 1 cut(s) 497
FalI AAGNNNNNCTT 2 cut(s) 389, 421
FaqI GGGAC 1 cut(s) 310
Fnu4HI GCNGC 1 cut(s) 134
FokI GGATG 4 cut(s) 62, 239, 485, 514
Fsp4HI GCNGC 1 cut(s) 134
FspBI CTAG 2 cut(s) 419, 498
GluI GCNGC 1 cut(s) 134
HaeIII GGCC 5 cut(s) 30, 72, 177, 486, 496
HindIII AAGCTT 1 cut(s) 168
HinfI GANTC 6 cut(s) 233, 239, 298, 328, 338, 457
HphI GGTGA 2 cut(s) 161, 502
Hpy188I TCNGA 2 cut(s) 238, 267
HpyAV CCTTC 1 cut(s) 101
HpyCH4V TGCA 6 cut(s) 120, 133, 160, 211, 315, 429
HpyF10VI GCNNNNNNNGC 1 cut(s) 217
HpyF3I CTNAG 2 cut(s) 57, 391
Kzo9I GATC 2 cut(s) 3, 317
LmnI GCTCC 1 cut(s) 350
LpnPI CCDG 6 cut(s) 69, 86, 171, 355, 473, 500
Lsp1109I GCAGC 1 cut(s) 145
MaeI CTAG 2 cut(s) 419, 498
MaeIII GTNAC 2 cut(s) 181, 508
MalI GATC 2 cut(s) 5, 319
MboI GATC 2 cut(s) 3, 317
MboII GAAGA 1 cut(s) 25
MluCI AATT 3 cut(s) 195, 261, 303
MlyI GAGTC 2 cut(s) 292, 347
MnlI CCTC 3 cut(s) 20, 456, 486
MseI TTAA 4 cut(s) 36, 42, 216, 351
MslI CAYNNNNRTG 1 cut(s) 225
MspR9I CCNGG 1 cut(s) 488
MvaI CCWGG 1 cut(s) 488
MwoI GCNNNNNNNGC 1 cut(s) 217
NdeII GATC 2 cut(s) 3, 317
NlaIV GGNNCC 1 cut(s) 176
NmuCI GTSAC 1 cut(s) 181
PceI AGGCCT 1 cut(s) 496
PfeI GAWTC 4 cut(s) 233, 239, 328, 457
PkrI GCNGC 1 cut(s) 135
PleI GAGTC 2 cut(s) 292, 346
PpsI GAGTC 2 cut(s) 292, 346
Psp6I CCWGG 1 cut(s) 486
PspGI CCWGG 1 cut(s) 486
PspN4I GGNNCC 1 cut(s) 176
PspPI GGNCC 2 cut(s) 70, 175
PstI CTGCAG 1 cut(s) 317
RseI CAYNNNNRTG 1 cut(s) 225
SaqAI TTAA 4 cut(s) 36, 42, 216, 351
SatI GCNGC 1 cut(s) 134
Sau3AI GATC 2 cut(s) 3, 317
Sau96I GGNCC 2 cut(s) 70, 175
SchI GAGTC 2 cut(s) 292, 347
ScrFI CCNGG 1 cut(s) 488
SetI ASST 7 cut(s) 22, 82, 112, 166, 172, 407, 517
SfcI CTRYAG 1 cut(s) 313
SmiMI CAYNNNNRTG 1 cut(s) 225
Sse9I AATT 3 cut(s) 195, 261, 303
SseBI AGGCCT 1 cut(s) 496
SsiI CCGC 1 cut(s) 200
SspMI CTAG 2 cut(s) 419, 498
StuI AGGCCT 1 cut(s) 496
StyD4I CCNGG 1 cut(s) 486
StyI CCWWGG 1 cut(s) 497
TasI AATT 3 cut(s) 195, 261, 303
TfiI GAWTC 4 cut(s) 233, 239, 328, 457
Tru1I TTAA 4 cut(s) 36, 42, 216, 351
Tru9I TTAA 4 cut(s) 36, 42, 216, 351
TscAI CASTG 1 cut(s) 533
TseFI GTSAC 1 cut(s) 181
TseI GCWGC 1 cut(s) 133
Tsp45I GTSAC 1 cut(s) 181
TspDTI ATGAA 4 cut(s) 120, 341, 350, 470
TspGWI ACGGA 1 cut(s) 438
TspRI CASTG 1 cut(s) 533
XagI CCTNNNNNAGG 1 cut(s) 24
XcmI CCANNNNNNNNNTGG 1 cut(s) 80
XmaJI CCTAGG 1 cut(s) 497
XspI CTAG 2 cut(s) 419, 498
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.