Rroxscaffold_177G00434230

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000177
OG0000890
Physical Location & Seq
Reverse (-)
182737 .. 183746
1010 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_177G00434230.1

Sequence Viewer

Length: 915 bp
ATGAAGAGAAGGCTCACAAGTGATAATTCTTGTCCTATATATCATACTCATTCTGAATCCTTATTGCACTTGCTAAGAGATTTCCCTAGAGTAAACAAAATTTGGCAGGAGATCAACTGTTTTGACAGTATTAGAAGAGCTATGCAAATTGATTGGGCAGGATGGCTAGCTGCTAATGGTTATTGCACAATGAAGTGTTACGGCGGAATGAATTGGAATGTCCTATTTACCTTCACTTGTTGGTATATTTGGAAATGGAGGAATAAAAATATTTTTGAAGAAGGATTTCAATTCCCTATTAACCCAGTTAAGGTCATTATGGATAGTGCTACCGAATGGTATCTTGCTCAGGGAAAGAAGAATACAAGGACCGACCAGACTACTGTGGCTTTGAAGTGGCTTAAACCTGGTAATGGATGGGTCAAATTGAATGTCGATGGTGCTAGAGCTAATTTAAATGGAAAAATAGGAGCTGGAGGGGTTCTTAGAGATCAGGATGGTAACTGGATACATGGATTTGCTGCTCATATTGGGCAAGGTCAGGTTTTGGAAGCCGAGACATGGGGCATGTTACTGGGTTTACAAATGGCTGCTAATCTTGGGATGGACAAAGTGGTCGTAGAATGTGATTCTGAAGTGTTGGTTAGTTTGATGAATAATGGAGTTGATGATCTGCATCCTTTAAAGACAGTTATCAACTTTTGTCTACACCTACAAAGTAGCTTCTCCAAGTGTGTGATAAGCCACGTGTTTCGAAAAGTTAATACGGTTGCGGATGGCCTTTCAAGATGCAATCTATCTGCTGAGATTGGTGCTATCTACTTTGAACAACCTCCTCCACAGGTTACTAACCTTGTGTTAGATGACTTGTGTGAAGTCCTTAAATATAGGAAAGTTGCAACAGCCATTAGCTGA
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

304

Amino Acids

34.37

Weight (kDa)

8.29

Isoelectric Point (pI)

32.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 144 - 262 3.7e-27 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
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Orthologous Genes (Group: OG0000890)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42905
fragaria_vesca FvH4_1g15070 FvH4_1g21661 FvH4_1g24182 FvH4_2g15861 FvH4_7g26563
prunus_persica Prupe.1G097800_v2.0.a1 Prupe.1G446500_v2.0.a1 Prupe.4G161900_v2.0.a1 Prupe.5G085900_v2.0.a1 Prupe.6G118100_v2.0.a1 Prupe.6G201000_v2.0.a1 Prupe.7G199700_v2.0.a1
pyrus_communis pycom07g22740 pycom15g37390 pycom420g00480 pycom420g00490
rosa_chinensis RchiOBHm_Chr1g0319821 RchiOBHm_Chr1g0331331 RchiOBHm_Chr2g0144631 RchiOBHm_Chr2g0146161 RchiOBHm_Chr2g0152401 RchiOBHm_Chr3g0484381 RchiOBHm_Chr3g0484471 RchiOBHm_Chr3g0494391 RchiOBHm_Chr4g0411801 RchiOBHm_Chr4g0426191 RchiOBHm_Chr5g0016411 RchiOBHm_Chr5g0074971 RchiOBHm_Chr6g0262791 RchiOBHm_Chr6g0272021 RchiOBHm_Chr7g0181271 RchiOBHm_Chr7g0224511 RchiOBHm_Chr7g0225251
rosa_laevigata RLG00000017287
rosa_multiflora Rmu_co8215414.1_g000001 Rmu_sc0001850.1_g000028 Rmu_sc0002132.1_g000045 Rmu_sc0003623.1_g000032 Rmu_sc0003826.1_g000010 Rmu_sc0004165.1_g000032 Rmu_sc0004805.1_g000052 Rmu_sc0005837.1_g000007 Rmu_sc0011261.1_g000003 Rmu_sc0012066.1_g000001 Rmu_sc0021240.1_g000002 Rmu_sc0028377.1_g000003 Rmu_ssc0000454.1_g000003
rosa_roxburghii Rroxscaffold_177G00434230 Rroxscaffold_180G00433210 Rroxscaffold_1G00050960 Rroxscaffold_2G00112540 Rroxscaffold_7G00172420
rosa_rugosa Rorug02G0446000 Rorug03G0370600 Rorug04G0217600.1 Rorug07G0160200 Rorug07G0292300.1
rosa_samantha Rh3AG161100 Rh5AG403600 Rh5CG315600 Rh5CG315800 Rh6BG408500 Rh7CG313500
rosa_wichuraiana Rw4G023910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 614
AccI GTMKAC 1 cut(s) 706
AciI CCGC 2 cut(s) 204, 773
AcsI RAATTY 1 cut(s) 99
AcuI CTGAAG 1 cut(s) 654
AcvI CACGTG 1 cut(s) 748
AfiI CCNNNNNNNGG 3 cut(s) 310, 413, 561
AflIII ACRYGT 1 cut(s) 747
AgsI TTSAA 6 cut(s) 278, 290, 394, 430, 786, 827
AjnI CCWGG 1 cut(s) 406
AluBI AGCT 6 cut(s) 140, 170, 449, 473, 723, 912
AluI AGCT 6 cut(s) 140, 170, 449, 473, 723, 912
Alw26I GTCTC 1 cut(s) 551
AoxI GGCC 1 cut(s) 778
ApeKI GCWGC 3 cut(s) 170, 521, 590
ApoI RAATTY 1 cut(s) 99
ArsI GACNNNNNNTTYG 2 cut(s) 417, 449
Asp700I GAANNNNTTC 1 cut(s) 285
AspS9I GGNCC 1 cut(s) 369
AsuII TTCGAA 1 cut(s) 754
AsuNHI GCTAGC 1 cut(s) 166
AvaII GGWCC 1 cut(s) 369
BbrPI CACGTG 1 cut(s) 748
BbvI GCAGC 3 cut(s) 157, 508, 577
BccI CCATC 6 cut(s) 156, 411, 431, 491, 598, 770
BceAI ACGGC 1 cut(s) 217
BciT130I CCWGG 1 cut(s) 408
BciVI GTATCC 1 cut(s) 501
BcoDI GTCTC 1 cut(s) 551
BfaI CTAG 3 cut(s) 87, 167, 444
BfuI GTATCC 1 cut(s) 501
BisI GCNGC 3 cut(s) 171, 522, 591
BlsI GCNGC 3 cut(s) 172, 523, 592
Bme1390I CCNGG 1 cut(s) 408
Bme18I GGWCC 1 cut(s) 369
BmgT120I GGNCC 1 cut(s) 369
BmrFI CCNGG 1 cut(s) 408
BmrI ACTGGG 2 cut(s) 299, 584
BmsI GCATC 2 cut(s) 685, 779
BmtI GCTAGC 1 cut(s) 170
BmuI ACTGGG 2 cut(s) 299, 584
BpmI CTGGAG 1 cut(s) 495
Bpu10I CCTNAGC 1 cut(s) 348
Bpu14I TTCGAA 1 cut(s) 754
BsaAI YACGTR 1 cut(s) 748
BsaBI GATNNNNATC 1 cut(s) 675
Bsc4I CCNNNNNNNGG 3 cut(s) 310, 413, 561
Bse1I ACTGG 3 cut(s) 305, 509, 579
Bse8I GATNNNNATC 1 cut(s) 675
BseBI CCWGG 1 cut(s) 408
BseGI GGATG 6 cut(s) 167, 422, 502, 609, 676, 781
BseJI GATNNNNATC 1 cut(s) 675
BseLI CCNNNNNNNGG 3 cut(s) 310, 413, 561
BseMII CTCAG 2 cut(s) 362, 795
BseNI ACTGG 3 cut(s) 305, 509, 579
BseRI GAGGAG 1 cut(s) 825
BseXI GCAGC 3 cut(s) 157, 508, 577
BshFI GGCC 1 cut(s) 780
BslI CCNNNNNNNGG 3 cut(s) 310, 413, 561
BsmAI GTCTC 1 cut(s) 551
BsnI GGCC 1 cut(s) 780
Bsp119I TTCGAA 1 cut(s) 754
Bsp143I GATC 3 cut(s) 111, 490, 670
BspACI CCGC 2 cut(s) 204, 773
BspANI GGCC 1 cut(s) 780
BspCNI CTCAG 2 cut(s) 361, 796
BspOI GCTAGC 1 cut(s) 170
BspQI GCTCTTC 1 cut(s) 130
BspT104I TTCGAA 1 cut(s) 754
BsrI ACTGG 3 cut(s) 305, 509, 579
BssMI GATC 3 cut(s) 111, 490, 670
Bst2UI CCWGG 1 cut(s) 408
Bst4CI ACNGT 5 cut(s) 119, 128, 385, 691, 769
Bst6I CTCTTC 1 cut(s) 130
BstBAI YACGTR 1 cut(s) 748
BstBI TTCGAA 1 cut(s) 754
BstC8I GCNNGC 1 cut(s) 168
BstDEI CTNAG 4 cut(s) 74, 348, 485, 804
BstF5I GGATG 6 cut(s) 167, 422, 502, 609, 676, 781
BstKTI GATC 3 cut(s) 114, 493, 673
BstMAI GTCTC 1 cut(s) 551
BstMBI GATC 3 cut(s) 111, 490, 670
BstNI CCWGG 1 cut(s) 408
BstNSI RCATGY 1 cut(s) 571
BstSCI CCNGG 1 cut(s) 406
BstV1I GCAGC 3 cut(s) 157, 508, 577
BsuI GTATCC 1 cut(s) 501
BsuRI GGCC 1 cut(s) 780
BtsCI GGATG 6 cut(s) 167, 422, 502, 609, 676, 781
Cac8I GCNNGC 1 cut(s) 168
Cfr13I GGNCC 1 cut(s) 369
CsiI ACCWGGT 1 cut(s) 406
CviAII CATG 3 cut(s) 512, 561, 568
DdeI CTNAG 4 cut(s) 74, 348, 485, 804
DpnI GATC 3 cut(s) 113, 492, 672
DpnII GATC 3 cut(s) 111, 490, 670
DraI TTTAAA 2 cut(s) 456, 684
DrdI GACNNNNNNGTC 1 cut(s) 614
DseDI GACNNNNNNGTC 1 cut(s) 614
Eam1104I CTCTTC 1 cut(s) 130
EarI CTCTTC 1 cut(s) 130
EciI GGCGGA 1 cut(s) 219
Eco47I GGWCC 1 cut(s) 369
Eco57I CTGAAG 1 cut(s) 654
Eco72I CACGTG 1 cut(s) 748
EcoRII CCWGG 1 cut(s) 406
FaeI CATG 3 cut(s) 515, 564, 571
FatI CATG 3 cut(s) 511, 560, 567
FblI GTMKAC 1 cut(s) 706
Fnu4HI GCNGC 3 cut(s) 171, 522, 591
FokI GGATG 6 cut(s) 174, 429, 509, 616, 663, 788
Fsp4HI GCNGC 3 cut(s) 171, 522, 591
FspBI CTAG 3 cut(s) 87, 167, 444
GluI GCNGC 3 cut(s) 171, 522, 591
GsuI CTGGAG 1 cut(s) 495
HaeIII GGCC 1 cut(s) 780
Hin1II CATG 3 cut(s) 515, 564, 571
HinfI GANTC 2 cut(s) 56, 629
Hpy166II GTNNAC 3 cut(s) 94, 581, 707
Hpy188I TCNGA 2 cut(s) 55, 634
Hpy188III TCNNGA 2 cut(s) 494, 786
Hpy8I GTNNAC 3 cut(s) 94, 581, 707
HpyAV CCTTC 3 cut(s) 3, 241, 275
HpyCH4III ACNGT 5 cut(s) 119, 128, 385, 691, 769
HpyCH4IV ACGT 1 cut(s) 747
HpyCH4V TGCA 6 cut(s) 67, 145, 186, 676, 792, 899
HpyF3I CTNAG 4 cut(s) 74, 348, 485, 804
HpySE526I ACGT 1 cut(s) 747
Hsp92II CATG 3 cut(s) 515, 564, 571
Kzo9I GATC 3 cut(s) 111, 490, 670
LguI GCTCTTC 1 cut(s) 130
LmnI GCTCC 1 cut(s) 470
Lsp1109I GCAGC 3 cut(s) 157, 508, 577
LweI GCATC 2 cut(s) 685, 779
MabI ACCWGGT 1 cut(s) 406
MaeI CTAG 3 cut(s) 87, 167, 444
MaeII ACGT 1 cut(s) 747
MaeIII GTNAC 4 cut(s) 197, 500, 570, 844
MalI GATC 3 cut(s) 113, 492, 672
MboI GATC 3 cut(s) 111, 490, 670
MboII GAAGA 4 cut(s) 16, 147, 290, 370
MluCI AATT 7 cut(s) 25, 99, 147, 211, 290, 425, 451
MnlI CCTC 4 cut(s) 252, 470, 843, 846
MroXI GAANNNNTTC 1 cut(s) 285
MseI TTAA 7 cut(s) 300, 309, 402, 455, 683, 762, 882
MspR9I CCNGG 1 cut(s) 408
MvaI CCWGG 1 cut(s) 408
NdeII GATC 3 cut(s) 111, 490, 670
NheI GCTAGC 1 cut(s) 166
NlaIII CATG 3 cut(s) 515, 564, 571
NmeAIII GCCGAG 1 cut(s) 580
NspI RCATGY 1 cut(s) 571
NspV TTCGAA 1 cut(s) 754
PciSI GCTCTTC 1 cut(s) 130
PdmI GAANNNNTTC 1 cut(s) 285
PfeI GAWTC 2 cut(s) 56, 629
PkrI GCNGC 3 cut(s) 172, 523, 592
PmaCI CACGTG 1 cut(s) 748
PmlI CACGTG 1 cut(s) 748
Ppu21I YACGTR 1 cut(s) 748
Psp6I CCWGG 1 cut(s) 406
PspCI CACGTG 1 cut(s) 748
PspGI CCWGG 1 cut(s) 406
PspPI GGNCC 1 cut(s) 369
SapI GCTCTTC 1 cut(s) 130
SaqAI TTAA 7 cut(s) 300, 309, 402, 455, 683, 762, 882
SatI GCNGC 3 cut(s) 171, 522, 591
Sau3AI GATC 3 cut(s) 111, 490, 670
Sau96I GGNCC 1 cut(s) 369
ScrFI CCNGG 1 cut(s) 408
SexAI ACCWGGT 1 cut(s) 406
SfaNI GCATC 2 cut(s) 685, 779
SfuI TTCGAA 1 cut(s) 754
SinI GGWCC 1 cut(s) 369
SmiI ATTTAAAT 1 cut(s) 456
Sse9I AATT 7 cut(s) 25, 99, 147, 211, 290, 425, 451
SsiI CCGC 2 cut(s) 204, 773
SspI AATATT 1 cut(s) 271
SspMI CTAG 3 cut(s) 87, 167, 444
StyD4I CCNGG 1 cut(s) 406
SwaI ATTTAAAT 1 cut(s) 456
TaaI ACNGT 5 cut(s) 119, 128, 385, 691, 769
TaiI ACGT 1 cut(s) 750
TaqI TCGA 2 cut(s) 435, 754
TaqII GACCGA 1 cut(s) 386
TasI AATT 7 cut(s) 25, 99, 147, 211, 290, 425, 451
TfiI GAWTC 2 cut(s) 56, 629
Tru1I TTAA 7 cut(s) 300, 309, 402, 455, 683, 762, 882
Tru9I TTAA 7 cut(s) 300, 309, 402, 455, 683, 762, 882
TseI GCWGC 3 cut(s) 170, 521, 590
TspDTI ATGAA 4 cut(s) 17, 206, 224, 668
VpaK11BI GGWCC 1 cut(s) 369
XapI RAATTY 1 cut(s) 99
XceI RCATGY 1 cut(s) 571
XmiI GTMKAC 1 cut(s) 706
XmnI GAANNNNTTC 1 cut(s) 285
XspI CTAG 3 cut(s) 87, 167, 444
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.