FvH4_2g00261

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0000385
Physical Location & Seq
Reverse (-)
388693 .. 390057
1365 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g00261.t1

Sequence Viewer

Length: 1011 bp
ATGTCCGCTGAGCTCATAGCCCTCCGAGAGGAAGTGAAGGAGGAGAAGCTTAAGTGGCTAAAGCAAACAGGTAGCGTCAAGGACTATGTCAACACATTTGTTAACTTACTATTCGAAGTGCCCAACATGACGGAGGACAAACTCATCTACTTCATGAGTGGATTACAAAGTTGGGCAAAGCTTGAGTTGCAAAGAAGACAAGTGCAGACCTTGTCACAAGCCATTGCCACTGCCGAGTCTCTTATTGAATTCAAAGCTAGCCACCAAGGCGACACCAAGTTCAAGGGGAAGAAGGTTAACTATGAGAAAAGTGGGGGAGACGTGCCAAAGCCGAAGGAGAAGCTCGAGTCAAGCTACAAGCCGAAGGCGAAGAGGTTCGAGAGGCACGACAAGGCCGCAAACAAGACTTGGGAAGGGAAGTGCTACTTATGCGACCACCCTCACATGATGCGTGATTGCCCTAAAAAAAAAGCACTCAAAGCCATGACCTTGCAAGAGCCTAGGATCGAGGCAGAGGAAGATAATGCAGCAAGGATGAGATGCATCCGGCTGCTCAATGCCGTGAAGGCTAGCGTCCCTCAACCAAGGCGACAAGCGGAAGGTGGATCGCTTTATATCGATGTCAAGGCAAAAGACACGATGATTAGTGCCTTGGTGGATTGCGGAGCAACTCATAATTTCATGACGTCGGAAGAAGAAAGGAAACTTGGCCTCCGAGTCACGAAGGAGTTGGGCAGCGTAAAGACAGTGAATACACTTGCCACGCCCAATGTTGGGGTAGCACGCTATGTGGAGGTTCACATCGGCGCTTGGAAGGGAAAAGTTGATTTCATCGTGGTCAAGATGGATGACTATGACGTGGTAATCGGCCTTGAATTCATGGACATGGTACGAGCATTTTCCATTCCATTCTATAACATCTTTTGCATTGTGGCGGATGGAGAATTGCCTTGGGTGGTGCCTATGGCGAGACAAGCAAGGGAGAAGACAAAGGCTCTATCCGCCATGTAA
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

Protein Analysis

337

Amino Acids

38.13

Weight (kDa)

9.14

Isoelectric Point (pI)

37.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
gag-asp_proteas PF13975 207 - 294 3.1e-08 gag-polyprotein putative aspartyl protease
Asp_protease_2 PF13650 207 - 293 8.7e-08 Aspartyl protease
RVP_2 PF08284 214 - 295 5.7e-06 Retroviral aspartyl protease
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: OG0000385)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23713 FvH4_1g25744 FvH4_2g00261 FvH4_2g00262 FvH4_2g15681 FvH4_2g17851 FvH4_2g35550 FvH4_3g05280 FvH4_3g10531 FvH4_3g25910 FvH4_3g28953 FvH4_3g33371 FvH4_3g33536 FvH4_3g36090 FvH4_4g03471 FvH4_4g03480 FvH4_4g06701 FvH4_4g19351 FvH4_4g34281 FvH4_5g00040 FvH4_5g03811 FvH4_5g03812 FvH4_5g11822 FvH4_5g30921 FvH4_5g31701 FvH4_6g12161 FvH4_6g15222 FvH4_6g15223 FvH4_6g17701 FvH4_6g17710 FvH4_6g19301 FvH4_6g33011 FvH4_6g34501 FvH4_6g50161 FvH4_7g04111 FvH4_7g04120 FvH4_7g04121 FvH4_7g04122 FvH4_7g04123 FvH4_7g28231 FvH4_c7g00010
malus_domestica MD12G1084200.v1.1
prunus_persica Prupe.1G206200_v2.0.a1 Prupe.8G085600_v2.0.a1
pyrus_communis pycom01g11080 pycom02g20500 pycom09g18370 pycom12555g00210 pycom13g23120 pycom14g10590 pycom16g17620 pycom16g22750
rosa_chinensis RchiOBHm_Chr2g0137481 RchiOBHm_Chr6g0251961 RchiOBHm_Chr7g0185821
rosa_laevigata RLG00000005585 RLG00000010281 RLG00000010912 RLG00000030342 RLG00000034281
rosa_multiflora Rmu_sc0000096.1_g000010 Rmu_sc0002481.1_g000045 Rmu_sc0003598.1_g000009 Rmu_sc0003863.1_g000019 Rmu_sc0003973.1_g000002 Rmu_sc0004823.1_g000050 Rmu_sc0005621.1_g000007 Rmu_sc0006537.1_g000030 Rmu_sc0006608.1_g000014 Rmu_sc0008506.1_g000007 Rmu_sc0014428.1_g000001 Rmu_sc0035437.1_g000001 Rmu_ssc0000396.1_g000022
rosa_roxburghii Rroxscaffold_175G00432300 Rroxscaffold_17G00435390 Rroxscaffold_27G00446590 Rroxscaffold_29G00441820 Rroxscaffold_31G00438110 Rroxscaffold_32G00442750 Rroxscaffold_33G00439810 Rroxscaffold_37G00445160 Rroxscaffold_4G00306500 Rroxscaffold_4G00327700 Rroxscaffold_4G00332630 Rroxscaffold_52G00439360 Rroxscaffold_63G00444420 Rroxscaffold_76G00448580 Rroxscaffold_7G00156270
rosa_rugosa Rorug03G0295200
rosa_samantha Rh1BG433700 Rh1CG115400 Rh2AG676300 Rh2CG341800 Rh2DG381400 Rh3BG370100 Rh3BG370200 Rh4AG441600 Rh4BG076500 Rh4BG107400 Rh5BG005600 Rh6BG010100 Rh7BG000200
rosa_wichuraiana Rw0G003820

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 689
AccB1I GGYRCC 1 cut(s) 958
AciI CCGC 6 cut(s) 6, 396, 596, 663, 935, 1002
AclWI GGATC 2 cut(s) 512, 613
AcsI RAATTY 2 cut(s) 248, 875
AcyI GRCGYC 1 cut(s) 686
AfaI GTAC 1 cut(s) 891
AfiI CCNNNNNNNGG 3 cut(s) 28, 773, 774
AflII CTTAAG 1 cut(s) 50
AgsI TTSAA 4 cut(s) 248, 253, 283, 875
AjiI CACGTC 2 cut(s) 322, 859
AjuI GAANNNNNNNTTGG 2 cut(s) 690, 722
AluBI AGCT 6 cut(s) 13, 49, 181, 257, 343, 354
AluI AGCT 6 cut(s) 13, 49, 181, 257, 343, 354
Alw21I GWGCWC 1 cut(s) 15
Alw26I GTCTC 3 cut(s) 243, 312, 964
AlwI GGATC 2 cut(s) 512, 613
Ama87I CYCGRG 1 cut(s) 344
AoxI GGCC 3 cut(s) 393, 709, 868
ApeKI GCWGC 3 cut(s) 527, 550, 735
ApoI RAATTY 2 cut(s) 248, 875
Asp700I GAANNNNTTC 1 cut(s) 374
AspA2I CCTAGG 1 cut(s) 500
AspLEI GCGC 1 cut(s) 809
AsuII TTCGAA 1 cut(s) 114
AsuNHI GCTAGC 2 cut(s) 257, 569
AvaI CYCGRG 1 cut(s) 344
AvrII CCTAGG 1 cut(s) 500
BaeGI GKGCMC 1 cut(s) 123
BanI GGYRCC 1 cut(s) 958
BanII GRGCYC 1 cut(s) 15
BbsI GAAGAC 2 cut(s) 202, 992
Bbv12I GWGCWC 1 cut(s) 15
BbvI GCAGC 3 cut(s) 537, 539, 747
BccI CCATC 2 cut(s) 838, 932
BceAI ACGGC 1 cut(s) 545
BcoDI GTCTC 3 cut(s) 243, 312, 964
BfaI CTAG 3 cut(s) 258, 501, 570
BfoI RGCGCY 1 cut(s) 810
BfrI CTTAAG 1 cut(s) 50
BglI GCCNNNNNGGC 2 cut(s) 267, 566
BisI GCNGC 4 cut(s) 396, 528, 551, 736
BlnI CCTAGG 1 cut(s) 500
BlpI GCTNAGC 1 cut(s) 9
BlsI GCNGC 4 cut(s) 397, 529, 552, 737
BmeT110I CYCGRG 1 cut(s) 344
BmgBI CACGTC 2 cut(s) 322, 859
BmiI GGNNCC 1 cut(s) 960
BmsI GCATC 3 cut(s) 438, 530, 552
BmtI GCTAGC 2 cut(s) 261, 573
BpiI GAAGAC 2 cut(s) 202, 992
Bpu1102I GCTNAGC 1 cut(s) 9
Bpu14I TTCGAA 1 cut(s) 114
BpuEI CTTGAG 1 cut(s) 203
Bsa29I ATCGAT 1 cut(s) 618
BsaHI GRCGYC 1 cut(s) 686
BsaJI CCNNGG 5 cut(s) 265, 500, 584, 651, 950
BsaXI ACNNNNNCTCC 2 cut(s) 696, 726
Bsc4I CCNNNNNNNGG 3 cut(s) 28, 773, 774
Bse3DI GCAATG 1 cut(s) 222
BseCI ATCGAT 1 cut(s) 618
BseDI CCNNGG 5 cut(s) 265, 500, 584, 651, 950
BseGI GGATG 4 cut(s) 540, 543, 853, 943
BseLI CCNNNNNNNGG 3 cut(s) 28, 773, 774
BseMI GCAATG 1 cut(s) 222
BseRI GAGGAG 1 cut(s) 56
BseSI GKGCMC 1 cut(s) 123
BseXI GCAGC 3 cut(s) 537, 539, 747
BsgI GTGCAG 1 cut(s) 224
BshFI GGCC 3 cut(s) 395, 711, 870
BshNI GGYRCC 1 cut(s) 958
BshVI ATCGAT 1 cut(s) 618
BsiHKAI GWGCWC 1 cut(s) 15
BsiHKCI CYCGRG 1 cut(s) 344
BsiSI CCGG 1 cut(s) 547
BslFI GGGAC 1 cut(s) 560
BslI CCNNNNNNNGG 3 cut(s) 28, 773, 774
BsmAI GTCTC 3 cut(s) 243, 312, 964
BsmBI CGTCTC 1 cut(s) 312
BsmFI GGGAC 1 cut(s) 560
BsnI GGCC 3 cut(s) 395, 711, 870
BsoBI CYCGRG 1 cut(s) 344
Bsp119I TTCGAA 1 cut(s) 114
Bsp1286I GDGCHC 2 cut(s) 15, 123
Bsp143I GATC 2 cut(s) 504, 605
Bsp1720I GCTNAGC 1 cut(s) 9
BspACI CCGC 6 cut(s) 6, 396, 596, 663, 935, 1002
BspANI GGCC 3 cut(s) 395, 711, 870
BspDI ATCGAT 1 cut(s) 618
BspHI TCATGA 2 cut(s) 153, 681
BspLI GGNNCC 1 cut(s) 960
BspOI GCTAGC 2 cut(s) 261, 573
BspPI GGATC 2 cut(s) 512, 613
BspT104I TTCGAA 1 cut(s) 114
BspT107I GGYRCC 1 cut(s) 958
BspTI CTTAAG 1 cut(s) 50
BsrDI GCAATG 1 cut(s) 222
BssECI CCNNGG 5 cut(s) 265, 500, 584, 651, 950
BssMI GATC 2 cut(s) 504, 605
BssNI GRCGYC 1 cut(s) 686
BssT1I CCWWGG 5 cut(s) 265, 500, 584, 651, 950
Bst4CI ACNGT 1 cut(s) 748
Bst6I CTCTTC 1 cut(s) 365
BstACI GRCGYC 1 cut(s) 686
BstAFI CTTAAG 1 cut(s) 50
BstBI TTCGAA 1 cut(s) 114
BstC8I GCNNGC 3 cut(s) 259, 571, 784
BstDEI CTNAG 1 cut(s) 9
BstENI CCTNNNNNAGG 1 cut(s) 26
BstF5I GGATG 4 cut(s) 540, 543, 853, 943
BstH2I RGCGCY 1 cut(s) 810
BstHHI GCGC 1 cut(s) 809
BstKTI GATC 2 cut(s) 507, 608
BstMAI GTCTC 3 cut(s) 243, 312, 964
BstMBI GATC 2 cut(s) 504, 605
BstMWI GCNNNNNNNGC 8 cut(s) 55, 187, 267, 429, 479, 566, 974, 1001
BstSLI GKGCMC 1 cut(s) 123
BstV1I GCAGC 3 cut(s) 537, 539, 747
BstV2I GAAGAC 2 cut(s) 202, 992
Bsu15I ATCGAT 1 cut(s) 618
BsuRI GGCC 3 cut(s) 395, 711, 870
BsuTUI ATCGAT 1 cut(s) 618
BtrI CACGTC 2 cut(s) 322, 859
BtsCI GGATG 4 cut(s) 540, 543, 853, 943
BtsI GCAGTG 1 cut(s) 228
BtsIMutI CAGTG 2 cut(s) 228, 753
Cac8I GCNNGC 3 cut(s) 259, 571, 784
CciI TCATGA 2 cut(s) 153, 681
CfoI GCGC 1 cut(s) 809
ClaI ATCGAT 1 cut(s) 618
CseI GACGC 2 cut(s) 64, 562
Csp6I GTAC 1 cut(s) 890
CviAII CATG 8 cut(s) 127, 154, 445, 484, 682, 880, 886, 1006
CviQI GTAC 1 cut(s) 890
DdeI CTNAG 1 cut(s) 9
DpnI GATC 2 cut(s) 506, 607
DpnII GATC 2 cut(s) 504, 605
Eam1104I CTCTTC 1 cut(s) 365
EarI CTCTTC 1 cut(s) 365
EciI GGCGGA 2 cut(s) 950, 991
Ecl136II GAGCTC 1 cut(s) 13
Eco130I CCWWGG 5 cut(s) 265, 500, 584, 651, 950
Eco24I GRGCYC 1 cut(s) 15
Eco53kI GAGCTC 1 cut(s) 13
Eco88I CYCGRG 1 cut(s) 344
EcoICRI GAGCTC 1 cut(s) 13
EcoNI CCTNNNNNAGG 1 cut(s) 26
EcoRI GAATTC 2 cut(s) 248, 875
EcoT14I CCWWGG 5 cut(s) 265, 500, 584, 651, 950
EcoT22I ATGCAT 1 cut(s) 545
EcoT38I GRGCYC 1 cut(s) 15
ErhI CCWWGG 5 cut(s) 265, 500, 584, 651, 950
Esp3I CGTCTC 1 cut(s) 312
FaeI CATG 8 cut(s) 130, 157, 448, 487, 685, 883, 889, 1009
FalI AAGNNNNNCTT 2 cut(s) 410, 442
FaqI GGGAC 1 cut(s) 560
FatI CATG 8 cut(s) 126, 153, 444, 483, 681, 879, 885, 1005
Fnu4HI GCNGC 4 cut(s) 396, 528, 551, 736
FokI GGATG 4 cut(s) 530, 547, 860, 950
FriOI GRGCYC 1 cut(s) 15
Fsp4HI GCNGC 4 cut(s) 396, 528, 551, 736
FspBI CTAG 3 cut(s) 258, 501, 570
GlaI GCGC 1 cut(s) 808
GluI GCNGC 4 cut(s) 396, 528, 551, 736
HaeII RGCGCY 1 cut(s) 810
HaeIII GGCC 3 cut(s) 395, 711, 870
HapII CCGG 1 cut(s) 547
HgaI GACGC 2 cut(s) 64, 562
HhaI GCGC 1 cut(s) 809
Hin1I GRCGYC 1 cut(s) 686
Hin1II CATG 8 cut(s) 130, 157, 448, 487, 685, 883, 889, 1009
Hin6I GCGC 1 cut(s) 807
HinP1I GCGC 1 cut(s) 807
HincII GTYRAC 3 cut(s) 91, 103, 298
HindII GTYRAC 3 cut(s) 91, 103, 298
HindIII AAGCTT 2 cut(s) 47, 179
HinfI GANTC 3 cut(s) 236, 347, 717
HpaI GTTAAC 2 cut(s) 103, 298
HpaII CCGG 1 cut(s) 547
Hpy166II GTNNAC 4 cut(s) 91, 103, 298, 799
Hpy188I TCNGA 3 cut(s) 26, 691, 716
Hpy188III TCNNGA 5 cut(s) 154, 379, 682, 721, 841
Hpy8I GTNNAC 4 cut(s) 91, 103, 298, 799
Hpy99I CGWCG 1 cut(s) 691
HpyAV CCTTC 9 cut(s) 31, 286, 328, 358, 407, 559, 593, 718, 808
HpyCH4III ACNGT 1 cut(s) 748
HpyCH4IV ACGT 3 cut(s) 321, 686, 858
HpyCH4V TGCA 6 cut(s) 190, 205, 493, 527, 543, 927
HpyF10VI GCNNNNNNNGC 8 cut(s) 55, 187, 267, 429, 479, 566, 974, 1001
HpyF3I CTNAG 1 cut(s) 9
HpySE526I ACGT 3 cut(s) 321, 686, 858
Hsp92I GRCGYC 1 cut(s) 686
Hsp92II CATG 8 cut(s) 130, 157, 448, 487, 685, 883, 889, 1009
HspAI GCGC 1 cut(s) 807
KspAI GTTAAC 2 cut(s) 103, 298
Kzo9I GATC 2 cut(s) 504, 605
LmnI GCTCC 1 cut(s) 665
LpnPI CCDG 2 cut(s) 54, 560
Lsp1109I GCAGC 3 cut(s) 537, 539, 747
LweI GCATC 3 cut(s) 438, 530, 552
MaeI CTAG 3 cut(s) 258, 501, 570
MaeII ACGT 3 cut(s) 321, 686, 858
MaeIII GTNAC 2 cut(s) 213, 718
MalI GATC 2 cut(s) 506, 607
MboI GATC 2 cut(s) 504, 605
MboII GAAGA 7 cut(s) 207, 301, 382, 530, 704, 707, 997
MhlI GDGCHC 2 cut(s) 15, 123
MluCI AATT 4 cut(s) 248, 676, 875, 944
MlyI GAGTC 3 cut(s) 245, 356, 726
MmeI TCCRAC 1 cut(s) 669
Mph1103I ATGCAT 1 cut(s) 545
MroXI GAANNNNTTC 1 cut(s) 374
MseI TTAA 3 cut(s) 51, 102, 297
MslI CAYNNNNRTG 1 cut(s) 884
MspA1I CMGCKG 1 cut(s) 8
MspCI CTTAAG 1 cut(s) 50
MspI CCGG 1 cut(s) 547
MwoI GCNNNNNNNGC 8 cut(s) 55, 187, 267, 429, 479, 566, 974, 1001
NdeII GATC 2 cut(s) 504, 605
NheI GCTAGC 2 cut(s) 257, 569
NlaIII CATG 8 cut(s) 130, 157, 448, 487, 685, 883, 889, 1009
NlaIV GGNNCC 1 cut(s) 960
NmeAIII GCCGAG 1 cut(s) 259
NmuCI GTSAC 2 cut(s) 213, 718
NsiI ATGCAT 1 cut(s) 545
NspV TTCGAA 1 cut(s) 114
PaeR7I CTCGAG 1 cut(s) 344
PagI TCATGA 2 cut(s) 153, 681
PcsI WCGNNNNNNNCGW 1 cut(s) 384
PdmI GAANNNNTTC 1 cut(s) 374
PflFI GACNNNGTC 2 cut(s) 86, 211
PkrI GCNGC 4 cut(s) 397, 529, 552, 737
PleI GAGTC 3 cut(s) 244, 355, 725
PpsI GAGTC 3 cut(s) 244, 355, 725
Psp124BI GAGCTC 1 cut(s) 15
PspN4I GGNNCC 1 cut(s) 960
PspXI VCTCGAGB 1 cut(s) 344
PsyI GACNNNGTC 2 cut(s) 86, 211
RsaI GTAC 1 cut(s) 891
RsaNI GTAC 1 cut(s) 890
RseI CAYNNNNRTG 1 cut(s) 884
SacI GAGCTC 1 cut(s) 15
SaqAI TTAA 3 cut(s) 51, 102, 297
SatI GCNGC 4 cut(s) 396, 528, 551, 736
Sau3AI GATC 2 cut(s) 504, 605
SchI GAGTC 3 cut(s) 245, 356, 726
SduI GDGCHC 2 cut(s) 15, 123
SfaNI GCATC 3 cut(s) 438, 530, 552
Sfr274I CTCGAG 1 cut(s) 344
SfuI TTCGAA 1 cut(s) 114
SlaI CTCGAG 1 cut(s) 344
SmiMI CAYNNNNRTG 1 cut(s) 884
SmlI CTYRAG 3 cut(s) 50, 182, 344
SmoI CTYRAG 3 cut(s) 50, 182, 344
Sse9I AATT 4 cut(s) 248, 676, 875, 944
SsiI CCGC 6 cut(s) 6, 396, 596, 663, 935, 1002
SspMI CTAG 3 cut(s) 258, 501, 570
SstI GAGCTC 1 cut(s) 15
StyI CCWWGG 5 cut(s) 265, 500, 584, 651, 950
TaaI ACNGT 1 cut(s) 748
TaiI ACGT 3 cut(s) 324, 689, 861
TaqI TCGA 5 cut(s) 114, 345, 378, 507, 618
TasI AATT 4 cut(s) 248, 676, 875, 944
TauI GCSGC 1 cut(s) 398
Tru1I TTAA 3 cut(s) 51, 102, 297
Tru9I TTAA 3 cut(s) 51, 102, 297
TscAI CASTG 2 cut(s) 235, 753
TseFI GTSAC 2 cut(s) 213, 718
TseI GCWGC 3 cut(s) 527, 550, 735
Tsp45I GTSAC 2 cut(s) 213, 718
TspDTI ATGAA 4 cut(s) 142, 670, 820, 868
TspGWI ACGGA 1 cut(s) 146
TspRI CASTG 2 cut(s) 235, 753
Tth111I GACNNNGTC 2 cut(s) 86, 211
Vha464I CTTAAG 1 cut(s) 50
XagI CCTNNNNNAGG 1 cut(s) 26
XapI RAATTY 2 cut(s) 248, 875
XhoI CTCGAG 1 cut(s) 344
XmaJI CCTAGG 1 cut(s) 500
XmnI GAANNNNTTC 1 cut(s) 374
XspI CTAG 3 cut(s) 258, 501, 570
ZraI GACGTC 1 cut(s) 687
Zsp2I ATGCAT 1 cut(s) 545
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.