Rroxscaffold_5G00360290

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000842
Physical Location & Seq
Forward (+)
40688102 .. 40704171
16070 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00360290.1

Sequence Viewer

Length: 966 bp
ATGAGCTGGAAAAATATGTTGAATATGAGGAGTGTCTTTGGAGACAGAAATCCCGGGTTCAATGGTTGCAGGAGGGAGACAAGAACACGAAGTTCTTCCATGCTATGGCTAAGGGATGTGGTCAACAAAATAAAATCCAAGGAGCATTTAATGAAAGATGAGTTTGGTGTGATGACCTGGAAACAATTCAAAAGGCTTTTGTTTTCTTATTTCTCTCACTTGTATACAGCAGAAGGTTGTAATAATGTGAGTTTGGTGCTAGCTACAATTTCAAAGAAAATTACAGATGCATTAAATGGCAAGTTGTTACAGAAATTTGAGAGCTGGGAAATAGAGCTGGCTTTGAAACATATGGGAGCAACAAAATCTCCAGGTCTAGATGGCATGTCGGTGTTAAAAAAACCTTATTGGATGGTGGTAGGAGATGCTGTTTGTGACTTCTGTTTGGATGTGTTAAATGATGGGAAGGACTTGGCTGATTTTAATCATACTCTCATATCACTCATTCCAAAAATCTCTTCTCCGAAGCATGTGACAAAATTTCGACCTATAAGCCTATGTTCCACAATGTATAAGCTGATCTCCAAAACCTTTGCTAATAGATTGAAGAAGCATTTGCTAGATATCATCCCCAGTACTCAAAGTGCTTTTGTTCCAGGTAGAAATATCCAGGACAATGTCATTGCAGCTTTTGAAACTGTCCACAGCATTCATGTTAAGCAGTCAACTACGGAGCCAAAGATGGTGCTTAATTTGGATATTAGTAAAGCGTATGATCGGGTAGAGTGGAATTTACTTGAAGAAGTAATGAAGTTGGGGTTTGCAGATCAGTGGGTGAGTTTAATTATGAAGTGTGTTCAGTCGCTATCTTTTTCTATTCTTTGGAAAGGTCAACCGGTTGGACATTTGAAGGATTATCAAGTTTACTTCATCAGGCAGACGAGATGGGTTTGTTTCATGGGGTGA
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_1 RVT_3 zf-RVT

Protein Analysis

321

Amino Acids

36.9

Weight (kDa)

9.49

Isoelectric Point (pI)

39.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 175 - 301 2.3e-16 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
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Orthologous Genes (Group: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 105
AccI GTMKAC 1 cut(s) 224
AcsI RAATTY 3 cut(s) 314, 539, 790
AfaI GTAC 1 cut(s) 637
AfiI CCNNNNNNNGG 1 cut(s) 105
AgeI ACCGGT 1 cut(s) 895
AgsI TTSAA 9 cut(s) 22, 61, 190, 273, 346, 607, 695, 800, 910
AjnI CCWGG 4 cut(s) 176, 370, 655, 669
AjuI GAANNNNNNNTTGG 2 cut(s) 502, 534
AluBI AGCT 6 cut(s) 6, 263, 324, 337, 577, 689
AluI AGCT 6 cut(s) 6, 263, 324, 337, 577, 689
Alw26I GTCTC 2 cut(s) 36, 71
Ama87I CYCGRG 1 cut(s) 53
ApeKI GCWGC 1 cut(s) 686
ApoI RAATTY 3 cut(s) 314, 539, 790
AsiGI ACCGGT 1 cut(s) 895
Asp700I GAANNNNTTC 2 cut(s) 94, 185
AsuC2I CCSGG 2 cut(s) 54, 55
AsuHPI GGTGA 1 cut(s) 847
AsuNHI GCTAGC 1 cut(s) 259
AvaI CYCGRG 1 cut(s) 53
BbvI GCAGC 1 cut(s) 698
BccI CCATC 5 cut(s) 374, 406, 455, 736, 939
BciT130I CCWGG 4 cut(s) 178, 372, 657, 671
BcnI CCSGG 2 cut(s) 54, 55
BcoDI GTCTC 2 cut(s) 36, 71
BfaI CTAG 3 cut(s) 260, 377, 620
BisI GCNGC 1 cut(s) 687
BlsI GCNGC 1 cut(s) 688
BmcAI AGTACT 1 cut(s) 637
Bme1390I CCNGG 6 cut(s) 54, 55, 178, 372, 657, 671
BmeT110I CYCGRG 1 cut(s) 53
BmiI GGNNCC 1 cut(s) 735
BmrFI CCNGG 6 cut(s) 54, 55, 178, 372, 657, 671
BmrI ACTGGG 1 cut(s) 627
BmsI GCATC 2 cut(s) 277, 415
BmtI GCTAGC 1 cut(s) 263
BmuI ACTGGG 1 cut(s) 627
BpmI CTGGAG 1 cut(s) 354
Bpu10I CCTNAGC 1 cut(s) 110
BpuMI CCSGG 2 cut(s) 54, 55
BsaBI GATNNNNATC 1 cut(s) 483
BsaJI CCNNGG 2 cut(s) 53, 138
BsaWI WCCGGW 1 cut(s) 895
BsaXI ACNNNNNCTCC 4 cut(s) 352, 382, 414, 444
Bsc4I CCNNNNNNNGG 1 cut(s) 105
Bse118I RCCGGY 1 cut(s) 895
Bse1I ACTGG 1 cut(s) 633
Bse3DI GCAATG 1 cut(s) 681
Bse8I GATNNNNATC 1 cut(s) 483
BseBI CCWGG 4 cut(s) 178, 372, 657, 671
BseDI CCNNGG 2 cut(s) 53, 138
BseGI GGATG 4 cut(s) 121, 417, 454, 627
BseJI GATNNNNATC 1 cut(s) 483
BseLI CCNNNNNNNGG 1 cut(s) 105
BseMI GCAATG 1 cut(s) 681
BseNI ACTGG 1 cut(s) 633
BseRI GAGGAG 1 cut(s) 43
BseXI GCAGC 1 cut(s) 698
BseYI CCCAGC 1 cut(s) 324
BshTI ACCGGT 1 cut(s) 895
BsiHKCI CYCGRG 1 cut(s) 53
BsiSI CCGG 2 cut(s) 54, 896
BslI CCNNNNNNNGG 1 cut(s) 105
BsmAI GTCTC 2 cut(s) 36, 71
BsmI GAATGC 1 cut(s) 708
BsoBI CYCGRG 1 cut(s) 53
Bsp143I GATC 3 cut(s) 579, 775, 826
BspLI GGNNCC 1 cut(s) 735
BspOI GCTAGC 1 cut(s) 263
BsrDI GCAATG 1 cut(s) 681
BsrFI RCCGGY 1 cut(s) 895
BsrI ACTGG 1 cut(s) 633
BssAI RCCGGY 1 cut(s) 895
BssECI CCNNGG 2 cut(s) 53, 138
BssMI GATC 3 cut(s) 579, 775, 826
BssNAI GTATAC 1 cut(s) 225
BssT1I CCWWGG 1 cut(s) 138
Bst1107I GTATAC 1 cut(s) 225
Bst2UI CCWGG 4 cut(s) 178, 372, 657, 671
Bst4CI ACNGT 1 cut(s) 700
Bst6I CTCTTC 1 cut(s) 523
BstC8I GCNNGC 2 cut(s) 261, 339
BstDEI CTNAG 1 cut(s) 110
BstF5I GGATG 4 cut(s) 121, 417, 454, 627
BstKTI GATC 3 cut(s) 582, 778, 829
BstMAI GTCTC 2 cut(s) 36, 71
BstMBI GATC 3 cut(s) 579, 775, 826
BstNI CCWGG 4 cut(s) 178, 372, 657, 671
BstNSI RCATGY 2 cut(s) 388, 533
BstSCI CCNGG 6 cut(s) 52, 53, 176, 370, 655, 669
BstV1I GCAGC 1 cut(s) 698
BstZ17I GTATAC 1 cut(s) 225
BtsCI GGATG 4 cut(s) 121, 417, 454, 627
BtsIMutI CAGTG 1 cut(s) 836
Cac8I GCNNGC 2 cut(s) 261, 339
Cfr10I RCCGGY 1 cut(s) 895
Cfr9I CCCGGG 1 cut(s) 53
Csp6I GTAC 1 cut(s) 636
CspAI ACCGGT 1 cut(s) 895
CviAII CATG 5 cut(s) 100, 385, 530, 713, 958
CviQI GTAC 1 cut(s) 636
DdeI CTNAG 1 cut(s) 110
DpnI GATC 3 cut(s) 581, 777, 828
DpnII GATC 3 cut(s) 579, 775, 826
Eam1104I CTCTTC 1 cut(s) 523
EarI CTCTTC 1 cut(s) 523
Eco130I CCWWGG 1 cut(s) 138
Eco32I GATATC 1 cut(s) 625
Eco88I CYCGRG 1 cut(s) 53
EcoRII CCWGG 4 cut(s) 176, 370, 655, 669
EcoRV GATATC 1 cut(s) 625
EcoT14I CCWWGG 1 cut(s) 138
EcoT22I ATGCAT 1 cut(s) 292
ErhI CCWWGG 1 cut(s) 138
FaeI CATG 5 cut(s) 103, 388, 533, 716, 961
FatI CATG 5 cut(s) 99, 384, 529, 712, 957
FauNDI CATATG 1 cut(s) 351
FblI GTMKAC 1 cut(s) 224
Fnu4HI GCNGC 1 cut(s) 687
FokI GGATG 4 cut(s) 128, 424, 461, 614
Fsp4HI GCNGC 1 cut(s) 687
FspBI CTAG 3 cut(s) 260, 377, 620
GluI GCNGC 1 cut(s) 687
GsaI CCCAGC 1 cut(s) 328
GsuI CTGGAG 1 cut(s) 354
HapII CCGG 2 cut(s) 54, 896
Hin1II CATG 5 cut(s) 103, 388, 533, 716, 961
HincII GTYRAC 3 cut(s) 124, 726, 893
HindII GTYRAC 3 cut(s) 124, 726, 893
HpaII CCGG 2 cut(s) 54, 896
HphI GGTGA 1 cut(s) 847
Hpy166II GTNNAC 6 cut(s) 124, 225, 703, 726, 893, 925
Hpy188I TCNGA 1 cut(s) 525
Hpy188III TCNNGA 1 cut(s) 377
Hpy8I GTNNAC 6 cut(s) 124, 225, 703, 726, 893, 925
HpyAV CCTTC 3 cut(s) 227, 460, 904
HpyCH4III ACNGT 1 cut(s) 700
HpyCH4V TGCA 4 cut(s) 69, 290, 686, 824
HpyF3I CTNAG 1 cut(s) 110
Hsp92II CATG 5 cut(s) 103, 388, 533, 716, 961
Kzo9I GATC 3 cut(s) 579, 775, 826
LmnI GCTCC 3 cut(s) 142, 356, 733
Lsp1109I GCAGC 1 cut(s) 698
LweI GCATC 2 cut(s) 277, 415
MaeI CTAG 3 cut(s) 260, 377, 620
MaeIII GTNAC 3 cut(s) 306, 434, 532
MalI GATC 3 cut(s) 581, 777, 828
MboI GATC 3 cut(s) 579, 775, 826
MboII GAAGA 4 cut(s) 87, 510, 619, 812
MluCI AATT 8 cut(s) 185, 267, 279, 314, 539, 751, 790, 843
MmeI TCCRAC 1 cut(s) 880
MnlI CCTC 2 cut(s) 21, 66
Mph1103I ATGCAT 1 cut(s) 292
MroXI GAANNNNTTC 2 cut(s) 94, 185
MseI TTAA 8 cut(s) 149, 293, 395, 455, 483, 717, 750, 842
MslI CAYNNNNRTG 1 cut(s) 389
MspI CCGG 2 cut(s) 54, 896
MspR9I CCNGG 6 cut(s) 54, 55, 178, 372, 657, 671
Mva1269I GAATGC 1 cut(s) 708
MvaI CCWGG 4 cut(s) 178, 372, 657, 671
NciI CCSGG 2 cut(s) 54, 55
NdeI CATATG 1 cut(s) 351
NdeII GATC 3 cut(s) 579, 775, 826
NheI GCTAGC 1 cut(s) 259
NlaIII CATG 5 cut(s) 103, 388, 533, 716, 961
NlaIV GGNNCC 1 cut(s) 735
NmuCI GTSAC 2 cut(s) 434, 532
NsiI ATGCAT 1 cut(s) 292
NspI RCATGY 2 cut(s) 388, 533
PctI GAATGC 1 cut(s) 708
PdmI GAANNNNTTC 2 cut(s) 94, 185
PflFI GACNNNGTC 1 cut(s) 677
PflMI CCANNNNNTGG 1 cut(s) 105
PfoI TCCNGGA 1 cut(s) 669
PinAI ACCGGT 1 cut(s) 895
PkrI GCNGC 1 cut(s) 688
Psp6I CCWGG 4 cut(s) 176, 370, 655, 669
PspFI CCCAGC 1 cut(s) 324
PspGI CCWGG 4 cut(s) 176, 370, 655, 669
PspN4I GGNNCC 1 cut(s) 735
PsyI GACNNNGTC 1 cut(s) 677
RsaI GTAC 1 cut(s) 637
RsaNI GTAC 1 cut(s) 636
RseI CAYNNNNRTG 1 cut(s) 389
SaqAI TTAA 8 cut(s) 149, 293, 395, 455, 483, 717, 750, 842
SatI GCNGC 1 cut(s) 687
Sau3AI GATC 3 cut(s) 579, 775, 826
ScaI AGTACT 1 cut(s) 637
ScrFI CCNGG 6 cut(s) 54, 55, 178, 372, 657, 671
SfaNI GCATC 2 cut(s) 277, 415
SmaI CCCGGG 1 cut(s) 55
SmiMI CAYNNNNRTG 1 cut(s) 389
Sse9I AATT 8 cut(s) 185, 267, 279, 314, 539, 751, 790, 843
SspMI CTAG 3 cut(s) 260, 377, 620
StyD4I CCNGG 6 cut(s) 52, 53, 176, 370, 655, 669
StyI CCWWGG 1 cut(s) 138
TaaI ACNGT 1 cut(s) 700
TaqI TCGA 1 cut(s) 544
TasI AATT 8 cut(s) 185, 267, 279, 314, 539, 751, 790, 843
TatI WGTACW 1 cut(s) 635
Tru1I TTAA 8 cut(s) 149, 293, 395, 455, 483, 717, 750, 842
Tru9I TTAA 8 cut(s) 149, 293, 395, 455, 483, 717, 750, 842
TscAI CASTG 1 cut(s) 836
TseFI GTSAC 2 cut(s) 434, 532
TseI GCWGC 1 cut(s) 686
Tsp45I GTSAC 2 cut(s) 434, 532
TspDTI ATGAA 6 cut(s) 167, 701, 824, 863, 919, 946
TspGWI ACGGA 1 cut(s) 746
TspMI CCCGGG 1 cut(s) 53
TspRI CASTG 1 cut(s) 836
Tth111I GACNNNGTC 1 cut(s) 677
Van91I CCANNNNNTGG 1 cut(s) 105
XapI RAATTY 3 cut(s) 314, 539, 790
XbaI TCTAGA 1 cut(s) 376
XceI RCATGY 2 cut(s) 388, 533
XmaI CCCGGG 1 cut(s) 53
XmiI GTMKAC 1 cut(s) 224
XmnI GAANNNNTTC 2 cut(s) 94, 185
XspI CTAG 3 cut(s) 260, 377, 620
ZrmI AGTACT 1 cut(s) 637
Zsp2I ATGCAT 1 cut(s) 292
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.