Rroxscaffold_2G00141700

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000492
Physical Location & Seq
Reverse (-)
79904446 .. 79905870
1425 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00141700.1

Sequence Viewer

Length: 1047 bp
ATGGGAGACTTCAATATCATTACTAGTCTTGATGAAAAACTTGGTGGGAGCCAAGTAGTCACAGATTATATGCTCAATTTCTGTGATTTTCTAAACAATGAAAACCTTTTCTCCTTAAGAGCCTCTGGACTCCCTTATACTTGGACAAATAAACATGACGATGATTCTCTCATTTTTGAGAGATTGGATAGGGCCTGCGAAAATATTTGGAACCAAAAACTCAATACTAATGCTTTATTGAATTTTGTTACCATTGCAGGACAATTCTCCAGCCAAGCTCAAAGCTGGAACAAGAATGTCTATGAAAATCTCTTGAGGAAGCTGGAGGATCTAAATGAAAGGAGTAATCTTATTCAACAACAGTTAATGATTTCACCTATGTCTAACTACTTGCAGGAGCAGGATCTTCAAGTCGGAGAAGAGCTTTTGAAACTTTATAAAGATGAAGAATTGTTTTGGGCTCGAAGGCTAAAGCTAACGGCTCAAAAGTCCTTACATGATTTTAGTAACGTTATTGAGCCATGCATTAATCAATATGACAATGAGCTTTTGAACAAACAGGTCACAGATGAGGAAATTCTAGATGCTGTTAAAGCTATTGGACCACTTAAAGCACCTGGTCCAGATGGGTTGCATGCCTCTTTTCAAAACTGCTGGAATGAAGTTAAGGATACAATCATCCCTATGATCAAAGATATTTTTATTGATAGTAATTCTCTACACCTAATAAACCATACTAATATTGCCTTGATTCCCAAAGTTGATAATCCTACTAAAGTAAATGATTTTAGGCCTATAAGCCTCTGCAATGTCTCTTATAAAATTATCTCCAAAATTCTTGTTAAAAGGTTAAGCCCTCTGCTAGAAAAGTGTATTTCCAAAAATCAAGGAGCTTTTGCTCCAGATGAAATCTTCTCGGATTTCCAAAAAAAGAAAGGAAGAGCTGGTGCTTTGGCACTCAAGTTGGACCTTGAAAAAACTTATGATTTCCTAAACTGGGATTATATCTCCCAATGCCTCAAGAGGTTTGGTTTTCATGATAATTAG
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

348

Amino Acids

40.05

Weight (kDa)

5.29

Isoelectric Point (pI)

35.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 251 - 346 3.5e-12 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: 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)
AanI TTATAA 2 cut(s) 438, 819
AclI AACGTT 1 cut(s) 510
AclWI GGATC 2 cut(s) 336, 411
AcsI RAATTY 3 cut(s) 241, 576, 834
AfiI CCNNNNNNNGG 1 cut(s) 997
AflII CTTAAG 1 cut(s) 115
AgsI TTSAA 8 cut(s) 13, 241, 356, 410, 430, 553, 647, 974
AhlI ACTAGT 1 cut(s) 23
AjnI CCWGG 1 cut(s) 616
AluBI AGCT 9 cut(s) 278, 285, 322, 424, 475, 547, 596, 893, 944
AluI AGCT 9 cut(s) 278, 285, 322, 424, 475, 547, 596, 893, 944
Alw26I GTCTC 1 cut(s) 817
AlwI GGATC 2 cut(s) 336, 411
AoxI GGCC 2 cut(s) 192, 791
ApoI RAATTY 3 cut(s) 241, 576, 834
AseI ATTAAT 1 cut(s) 528
AspS9I GGNCC 4 cut(s) 192, 602, 620, 967
AsuHPI GGTGA 1 cut(s) 366
AvaII GGWCC 3 cut(s) 602, 620, 967
BanII GRGCYC 1 cut(s) 463
BccI CCATC 1 cut(s) 620
BceAI ACGGC 1 cut(s) 495
BciT130I CCWGG 1 cut(s) 618
BciVI GTATCC 1 cut(s) 664
BclI TGATCA 1 cut(s) 687
BcoDI GTCTC 1 cut(s) 817
BcuI ACTAGT 1 cut(s) 23
BfaI CTAG 3 cut(s) 24, 581, 863
BfrI CTTAAG 1 cut(s) 115
BfuI GTATCC 1 cut(s) 664
Bme1390I CCNGG 1 cut(s) 618
Bme18I GGWCC 3 cut(s) 602, 620, 967
BmgT120I GGNCC 4 cut(s) 192, 602, 620, 967
BmiI GGNNCC 2 cut(s) 50, 212
BmrFI CCNGG 1 cut(s) 618
BmrI ACTGGG 1 cut(s) 1006
BmsI GCATC 1 cut(s) 574
BmuI ACTGGG 1 cut(s) 1006
BpmI CTGGAG 3 cut(s) 253, 344, 885
BpuEI CTTGAG 3 cut(s) 334, 944, 1004
BsaXI ACNNNNNCTCC 2 cut(s) 95, 125
Bsc4I CCNNNNNNNGG 1 cut(s) 997
Bse1I ACTGG 1 cut(s) 1001
Bse3DI GCAATG 2 cut(s) 252, 814
BseBI CCWGG 1 cut(s) 618
BseGI GGATG 1 cut(s) 678
BseLI CCNNNNNNNGG 1 cut(s) 997
BseMI GCAATG 2 cut(s) 252, 814
BseNI ACTGG 1 cut(s) 1001
BshFI GGCC 2 cut(s) 194, 793
BslI CCNNNNNNNGG 1 cut(s) 997
BsmAI GTCTC 1 cut(s) 817
BsnI GGCC 2 cut(s) 194, 793
Bsp1286I GDGCHC 1 cut(s) 463
Bsp143I GATC 3 cut(s) 328, 403, 687
BspANI GGCC 2 cut(s) 194, 793
BspHI TCATGA 1 cut(s) 1036
BspLI GGNNCC 2 cut(s) 50, 212
BspPI GGATC 2 cut(s) 336, 411
BspQI GCTCTTC 2 cut(s) 414, 934
BspTI CTTAAG 1 cut(s) 115
BsrDI GCAATG 2 cut(s) 252, 814
BsrI ACTGG 1 cut(s) 1001
BssMI GATC 3 cut(s) 328, 403, 687
Bst2UI CCWGG 1 cut(s) 618
Bst4CI ACNGT 1 cut(s) 363
Bst6I CTCTTC 2 cut(s) 414, 934
BstAFI CTTAAG 1 cut(s) 115
BstC8I GCNNGC 2 cut(s) 196, 636
BstF5I GGATG 1 cut(s) 678
BstKTI GATC 3 cut(s) 331, 406, 690
BstMAI GTCTC 1 cut(s) 817
BstMBI GATC 3 cut(s) 328, 403, 687
BstMWI GCNNNNNNNGC 1 cut(s) 593
BstNI CCWGG 1 cut(s) 618
BstNSI RCATGY 1 cut(s) 638
BstSCI CCNGG 1 cut(s) 616
BstX2I RGATCY 2 cut(s) 328, 403
BstYI RGATCY 2 cut(s) 328, 403
BsuI GTATCC 1 cut(s) 664
BsuRI GGCC 2 cut(s) 194, 793
BtsCI GGATG 1 cut(s) 678
Cac8I GCNNGC 2 cut(s) 196, 636
CciI TCATGA 1 cut(s) 1036
Cfr13I GGNCC 4 cut(s) 192, 602, 620, 967
CsiI ACCWGGT 1 cut(s) 616
CviAII CATG 5 cut(s) 155, 497, 522, 635, 1037
DpnI GATC 3 cut(s) 330, 405, 689
DpnII GATC 3 cut(s) 328, 403, 687
Eam1104I CTCTTC 2 cut(s) 414, 934
EarI CTCTTC 2 cut(s) 414, 934
Eco147I AGGCCT 1 cut(s) 793
Eco24I GRGCYC 1 cut(s) 463
Eco47I GGWCC 3 cut(s) 602, 620, 967
EcoO109I RGGNCCY 1 cut(s) 192
EcoRII CCWGG 1 cut(s) 616
EcoT22I ATGCAT 1 cut(s) 527
EcoT38I GRGCYC 1 cut(s) 463
FaeI CATG 5 cut(s) 158, 500, 525, 638, 1040
FatI CATG 5 cut(s) 154, 496, 521, 634, 1036
FbaI TGATCA 1 cut(s) 687
FokI GGATG 1 cut(s) 665
FriOI GRGCYC 1 cut(s) 463
FspBI CTAG 3 cut(s) 24, 581, 863
GsuI CTGGAG 3 cut(s) 253, 344, 885
HaeIII GGCC 2 cut(s) 194, 793
Hin1II CATG 5 cut(s) 158, 500, 525, 638, 1040
HinfI GANTC 3 cut(s) 129, 164, 751
HphI GGTGA 1 cut(s) 366
Hpy188I TCNGA 2 cut(s) 416, 919
Hpy188III TCNNGA 8 cut(s) 29, 126, 313, 581, 623, 902, 1021, 1037
HpyAV CCTTC 1 cut(s) 459
HpyCH4III ACNGT 1 cut(s) 363
HpyCH4IV ACGT 1 cut(s) 510
HpyCH4V TGCA 5 cut(s) 257, 394, 525, 634, 807
HpyF10VI GCNNNNNNNGC 1 cut(s) 593
HpySE526I ACGT 1 cut(s) 510
Hsp92II CATG 5 cut(s) 158, 500, 525, 638, 1040
Ksp22I TGATCA 1 cut(s) 687
Kzo9I GATC 3 cut(s) 328, 403, 687
LguI GCTCTTC 2 cut(s) 414, 934
LmnI GCTCC 4 cut(s) 48, 397, 890, 904
LweI GCATC 1 cut(s) 574
MabI ACCWGGT 1 cut(s) 616
MaeI CTAG 3 cut(s) 24, 581, 863
MaeII ACGT 1 cut(s) 510
MaeIII GTNAC 4 cut(s) 58, 247, 506, 562
MalI GATC 3 cut(s) 330, 405, 689
MboI GATC 3 cut(s) 328, 403, 687
MboII GAAGA 5 cut(s) 398, 431, 458, 904, 951
MflI RGATCY 2 cut(s) 328, 403
MhlI GDGCHC 1 cut(s) 463
MluCI AATT 9 cut(s) 76, 241, 263, 449, 576, 712, 822, 834, 1042
MlyI GAGTC 1 cut(s) 123
MmeI TCCRAC 2 cut(s) 394, 945
MnlI CCTC 9 cut(s) 133, 309, 319, 565, 649, 812, 867, 1017, 1028
Mph1103I ATGCAT 1 cut(s) 527
MseI TTAA 8 cut(s) 116, 365, 528, 591, 609, 666, 843, 851
MslI CAYNNNNRTG 2 cut(s) 159, 683
MspCI CTTAAG 1 cut(s) 115
MspR9I CCNGG 1 cut(s) 618
MvaI CCWGG 1 cut(s) 618
MwoI GCNNNNNNNGC 1 cut(s) 593
NdeII GATC 3 cut(s) 328, 403, 687
NlaIII CATG 5 cut(s) 158, 500, 525, 638, 1040
NlaIV GGNNCC 2 cut(s) 50, 212
NmuCI GTSAC 2 cut(s) 58, 562
NsiI ATGCAT 1 cut(s) 527
NspI RCATGY 1 cut(s) 638
PaeI GCATGC 1 cut(s) 638
PagI TCATGA 1 cut(s) 1036
PceI AGGCCT 1 cut(s) 793
PciSI GCTCTTC 2 cut(s) 414, 934
PfeI GAWTC 2 cut(s) 164, 751
PleI GAGTC 1 cut(s) 123
PpsI GAGTC 1 cut(s) 123
PshBI ATTAAT 1 cut(s) 528
PsiI TTATAA 2 cut(s) 438, 819
Psp1406I AACGTT 1 cut(s) 510
Psp6I CCWGG 1 cut(s) 616
PspGI CCWGG 1 cut(s) 616
PspN4I GGNNCC 2 cut(s) 50, 212
PspPI GGNCC 4 cut(s) 192, 602, 620, 967
PsuI RGATCY 2 cut(s) 328, 403
RseI CAYNNNNRTG 2 cut(s) 159, 683
SapI GCTCTTC 2 cut(s) 414, 934
SaqAI TTAA 8 cut(s) 116, 365, 528, 591, 609, 666, 843, 851
Sau3AI GATC 3 cut(s) 328, 403, 687
Sau96I GGNCC 4 cut(s) 192, 602, 620, 967
SchI GAGTC 1 cut(s) 123
ScrFI CCNGG 1 cut(s) 618
SduI GDGCHC 1 cut(s) 463
SexAI ACCWGGT 1 cut(s) 616
SfaNI GCATC 1 cut(s) 574
SinI GGWCC 3 cut(s) 602, 620, 967
SmiMI CAYNNNNRTG 2 cut(s) 159, 683
SmlI CTYRAG 4 cut(s) 115, 313, 959, 1019
SmoI CTYRAG 4 cut(s) 115, 313, 959, 1019
SpeI ACTAGT 1 cut(s) 23
SphI GCATGC 1 cut(s) 638
Sse9I AATT 9 cut(s) 76, 241, 263, 449, 576, 712, 822, 834, 1042
SseBI AGGCCT 1 cut(s) 793
SspI AATATT 2 cut(s) 205, 742
SspMI CTAG 3 cut(s) 24, 581, 863
StuI AGGCCT 1 cut(s) 793
StyD4I CCNGG 1 cut(s) 616
TaaI ACNGT 1 cut(s) 363
TaiI ACGT 1 cut(s) 513
TaqI TCGA 1 cut(s) 463
TasI AATT 9 cut(s) 76, 241, 263, 449, 576, 712, 822, 834, 1042
TfiI GAWTC 2 cut(s) 164, 751
Tru1I TTAA 8 cut(s) 116, 365, 528, 591, 609, 666, 843, 851
Tru9I TTAA 8 cut(s) 116, 365, 528, 591, 609, 666, 843, 851
TseFI GTSAC 2 cut(s) 58, 562
Tsp45I GTSAC 2 cut(s) 58, 562
TspDTI ATGAA 8 cut(s) 48, 114, 318, 351, 459, 675, 921, 1025
Vha464I CTTAAG 1 cut(s) 115
VpaK11BI GGWCC 3 cut(s) 602, 620, 967
VspI ATTAAT 1 cut(s) 528
XapI RAATTY 3 cut(s) 241, 576, 834
XbaI TCTAGA 1 cut(s) 580
XceI RCATGY 1 cut(s) 638
XspI CTAG 3 cut(s) 24, 581, 863
Zsp2I ATGCAT 1 cut(s) 527
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.