Rroxscaffold_1G00050960

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000890
Physical Location & Seq
Reverse (-)
71483283 .. 71484154
872 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00050960.1

Sequence Viewer

Length: 618 bp
ATGATTTGGAACAGTGTCATATGCTTGGATTCTATCTCTAGGACTATGCAGCTTGATTGGTATGGGTGGTTCTTTGCTAACTCTCAGTGCAAGAAACTATGTTATGGGAATCTTCAATGGTGCTCAATTTTTGTGTATACTTGCTGGCACATATGGAAGTGGAGGAATAAAAAGGTGTTTGATGTGGGATTCCACTACCCTTTTAATCCTGGGAAAGTTGTTATTGATTCTGCTAGGGAATGGAAATCTGCCAACACTCTCAAGCCTCATCAGTCTAGTAAAACTTCTGTCAGGTTGTTTTGGAAGAAACCACTTATGCATTACTTTAAATTAAATGTTGATGGTGCTAGAAATATTAATGGGAAAATTGGTGCTGGCGGTGTCTTAAGGGATTCTACGGGTGCTTGGATTTCTGGGTTTTATGCTAATCTTGGATGCGGATCTGTCCTTCAGGCGGAAGCTTGGGGGTTACTTCTGGGTCTACAAATGGCTATCTCTCATCATTGCCATCATCTTCTGGTGGAAAGTGATTCCCATGTGTTAGTCTCCCTCGTCCAGCATGATGTGGATGATCTGCACCCCTTAAAAACCATTACTGACTGTTGCCAAGCCCTCTAA
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

205

Amino Acids

23.41

Weight (kDa)

8.85

Isoelectric Point (pI)

36.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 112 - 201 4.1e-15 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)
AccI GTMKAC 2 cut(s) 137, 481
AciI CCGC 3 cut(s) 378, 438, 455
AclWI GGATC 1 cut(s) 448
AcuI CTGAAG 1 cut(s) 434
AfiI CCNNNNNNNGG 1 cut(s) 454
AflII CTTAAG 1 cut(s) 385
AgsI TTSAA 1 cut(s) 116
AjnI CCWGG 1 cut(s) 208
AluBI AGCT 2 cut(s) 52, 461
AluI AGCT 2 cut(s) 52, 461
Alw21I GWGCWC 1 cut(s) 125
Alw26I GTCTC 1 cut(s) 550
AlwI GGATC 1 cut(s) 448
ApeKI GCWGC 1 cut(s) 49
AseI ATTAAT 1 cut(s) 357
Bbv12I GWGCWC 1 cut(s) 125
BbvI GCAGC 1 cut(s) 61
BccI CCATC 2 cut(s) 335, 516
BciT130I CCWGG 1 cut(s) 210
BcoDI GTCTC 1 cut(s) 550
BfaI CTAG 4 cut(s) 39, 234, 276, 348
BfrI CTTAAG 1 cut(s) 385
BisI GCNGC 1 cut(s) 50
BlsI GCNGC 1 cut(s) 51
Bme1390I CCNGG 1 cut(s) 210
BmrFI CCNGG 1 cut(s) 210
BmsI GCATC 1 cut(s) 425
BpuEI CTTGAG 1 cut(s) 245
BsaBI GATNNNNATC 1 cut(s) 439
BsaJI CCNNGG 1 cut(s) 209
Bsc4I CCNNNNNNNGG 1 cut(s) 454
Bse3DI GCAATG 1 cut(s) 502
Bse8I GATNNNNATC 1 cut(s) 439
BseBI CCWGG 1 cut(s) 210
BseDI CCNNGG 1 cut(s) 209
BseGI GGATG 2 cut(s) 440, 574
BseJI GATNNNNATC 1 cut(s) 439
BseLI CCNNNNNNNGG 1 cut(s) 454
BseMI GCAATG 1 cut(s) 502
BseMII CTCAG 1 cut(s) 98
BseXI GCAGC 1 cut(s) 61
BsgI GTGCAG 1 cut(s) 560
BsiHKAI GWGCWC 1 cut(s) 125
BslI CCNNNNNNNGG 1 cut(s) 454
BsmAI GTCTC 1 cut(s) 550
Bsp1286I GDGCHC 1 cut(s) 125
Bsp143I GATC 2 cut(s) 440, 571
BspACI CCGC 3 cut(s) 378, 438, 455
BspCNI CTCAG 1 cut(s) 97
BspPI GGATC 1 cut(s) 448
BspTI CTTAAG 1 cut(s) 385
BsrDI GCAATG 1 cut(s) 502
BssECI CCNNGG 1 cut(s) 209
BssMI GATC 2 cut(s) 440, 571
BssNAI GTATAC 1 cut(s) 138
Bst1107I GTATAC 1 cut(s) 138
Bst2UI CCWGG 1 cut(s) 210
Bst4CI ACNGT 2 cut(s) 14, 602
BstAFI CTTAAG 1 cut(s) 385
BstC8I GCNNGC 2 cut(s) 146, 376
BstDEI CTNAG 1 cut(s) 84
BstF5I GGATG 2 cut(s) 440, 574
BstKTI GATC 2 cut(s) 443, 574
BstMAI GTCTC 1 cut(s) 550
BstMBI GATC 2 cut(s) 440, 571
BstNI CCWGG 1 cut(s) 210
BstSCI CCNGG 1 cut(s) 208
BstV1I GCAGC 1 cut(s) 61
BstX2I RGATCY 1 cut(s) 440
BstYI RGATCY 1 cut(s) 440
BstZ17I GTATAC 1 cut(s) 138
BtsCI GGATG 2 cut(s) 440, 574
BtsIMutI CAGTG 2 cut(s) 19, 92
Cac8I GCNNGC 2 cut(s) 146, 376
CviAII CATG 2 cut(s) 536, 560
CviJI RGCY 5 cut(s) 52, 265, 461, 491, 611
CviKI_1 RGCY 5 cut(s) 52, 265, 461, 491, 611
DdeI CTNAG 1 cut(s) 84
DpnI GATC 2 cut(s) 442, 573
DpnII GATC 2 cut(s) 440, 571
DraI TTTAAA 1 cut(s) 328
EciI GGCGGA 1 cut(s) 470
Eco57I CTGAAG 1 cut(s) 434
EcoRII CCWGG 1 cut(s) 208
EcoT22I ATGCAT 1 cut(s) 321
FaeI CATG 2 cut(s) 539, 563
FatI CATG 2 cut(s) 535, 559
FauNDI CATATG 2 cut(s) 20, 152
FblI GTMKAC 2 cut(s) 137, 481
Fnu4HI GCNGC 1 cut(s) 50
FokI GGATG 2 cut(s) 447, 581
Fsp4HI GCNGC 1 cut(s) 50
FspBI CTAG 4 cut(s) 39, 234, 276, 348
GluI GCNGC 1 cut(s) 50
Hin1II CATG 2 cut(s) 539, 563
HindIII AAGCTT 1 cut(s) 459
HinfI GANTC 6 cut(s) 29, 109, 189, 227, 392, 530
Hpy166II GTNNAC 2 cut(s) 138, 482
Hpy8I GTNNAC 2 cut(s) 138, 482
HpyAV CCTTC 1 cut(s) 458
HpyCH4III ACNGT 2 cut(s) 14, 602
HpyCH4V TGCA 4 cut(s) 49, 90, 319, 577
HpyF3I CTNAG 1 cut(s) 84
Hsp92II CATG 2 cut(s) 539, 563
Kzo9I GATC 2 cut(s) 440, 571
Lsp1109I GCAGC 1 cut(s) 61
LweI GCATC 1 cut(s) 425
MaeI CTAG 4 cut(s) 39, 234, 276, 348
MaeIII GTNAC 1 cut(s) 468
MalI GATC 2 cut(s) 442, 573
MboI GATC 2 cut(s) 440, 571
MboII GAAGA 3 cut(s) 104, 316, 506
MflI RGATCY 1 cut(s) 440
MhlI GDGCHC 1 cut(s) 125
MluCI AATT 3 cut(s) 126, 329, 366
MnlI CCTC 3 cut(s) 156, 276, 560
Mph1103I ATGCAT 1 cut(s) 321
MseI TTAA 6 cut(s) 204, 327, 332, 357, 386, 584
MspCI CTTAAG 1 cut(s) 385
MspR9I CCNGG 1 cut(s) 210
MvaI CCWGG 1 cut(s) 210
NdeI CATATG 2 cut(s) 20, 152
NdeII GATC 2 cut(s) 440, 571
NlaIII CATG 2 cut(s) 539, 563
NsiI ATGCAT 1 cut(s) 321
PfeI GAWTC 6 cut(s) 29, 109, 189, 227, 392, 530
PkrI GCNGC 1 cut(s) 51
PshBI ATTAAT 1 cut(s) 357
Psp6I CCWGG 1 cut(s) 208
PspGI CCWGG 1 cut(s) 208
PsrI GAACNNNNNNTAC 2 cut(s) 53, 85
PsuI RGATCY 1 cut(s) 440
SaqAI TTAA 6 cut(s) 204, 327, 332, 357, 386, 584
SatI GCNGC 1 cut(s) 50
Sau3AI GATC 2 cut(s) 440, 571
ScrFI CCNGG 1 cut(s) 210
SduI GDGCHC 1 cut(s) 125
SetI ASST 4 cut(s) 54, 177, 296, 463
SfaNI GCATC 1 cut(s) 425
SmlI CTYRAG 2 cut(s) 260, 385
SmoI CTYRAG 2 cut(s) 260, 385
Sse9I AATT 3 cut(s) 126, 329, 366
SsiI CCGC 3 cut(s) 378, 438, 455
SspI AATATT 1 cut(s) 355
SspMI CTAG 4 cut(s) 39, 234, 276, 348
StyD4I CCNGG 1 cut(s) 208
TaaI ACNGT 2 cut(s) 14, 602
TasI AATT 3 cut(s) 126, 329, 366
TfiI GAWTC 6 cut(s) 29, 109, 189, 227, 392, 530
Tru1I TTAA 6 cut(s) 204, 327, 332, 357, 386, 584
Tru9I TTAA 6 cut(s) 204, 327, 332, 357, 386, 584
TscAI CASTG 2 cut(s) 19, 92
TseI GCWGC 1 cut(s) 49
TspRI CASTG 2 cut(s) 19, 92
Vha464I CTTAAG 1 cut(s) 385
VspI ATTAAT 1 cut(s) 357
XmiI GTMKAC 2 cut(s) 137, 481
XspI CTAG 4 cut(s) 39, 234, 276, 348
Zsp2I ATGCAT 1 cut(s) 321
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.