Rw5G034640

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000106
Physical Location & Seq
Reverse (-)
59688322 .. 59689753
1432 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G034640.1

Sequence Viewer

Length: 1038 bp
ATGTTGGTTTCTAAGCCTTTGGCGGAGGACAATTACTCAATATGGGCACCTTCGATTATGATGGCACTCGAAATCAAGAACAAAGCTGGATTTGTAAATAGAACTCTTAAAAGATGCAATACTCTTGTAAAGAATTGGCTTATCTCGTCTATGACAAAGAAAATGTCCAAATCTGTGATTCACCGTAAGGAGGCTAGAACTATATGGCTAGAATTAAAGGATCGTTTCTATCAGACAAATTCCGTTGCCCTGTTCCGAATTGAAGGCAACATACACAACTGTGAGCAGGGAAGCCGTTCCGTCACAGCCTACTACACGGACTTGAAAGGGATGTGGGATGAGAAAGACGCTCCATGTTCCTTTCCTTCATGCACCTGTGATGCAGCAGCAGAGATTAACAAATTCATGGAGGCACAGAAGACAATGAAGTTTCTTGTAGGTTTGAATGAAAGCTTTGAACAAACCCGTGGAAACATAATAGGTATGGATCCTCTACCAAGCTTGAGTAAGGCATATGCTATTGTGTATCGGCATGAGAAGCAATCACAGGTTGCGGCAGACAAAGACACTGCAGTTCCAGAATCTGCAGCTTTCTCCGTTAAAGGTTTGGGCCGAGAATCCAATGTTGTAGACAGGGAAGCCGCTGACTCCTCCATCAACTCTGTCAAGAAAGGGAATCGTGACCGACTTTCTGAAGGAGCAAATGACTTTCGTCGATCCGATAGAGAAGGTAGGTATTGTGAGAAATGTGATATGACTAACCATAGTACCAAATATTGCAGAGCTCACACCACATGTTCCTATTGCAACTTGAAAGGACATTCACAAGCGTATTGCCGTAAACAGAAGAATGATATTGCAAATGCACAGGATGCCTCAGAGGGATACAATGAAGACTTTCCTCTCATAAAACAAGAATGTCAACGCTTCCTCAACAAGCTCATGGCCCAATCACAATCATCTTCTGCGAACTTTGTCAGTAATATACAAAATTATGAAGAACCTACGATCGGGGAAGATGATTGGGATGGGAACTAA
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_2

Protein Analysis

345

Amino Acids

39.06

Weight (kDa)

8.16

Isoelectric Point (pI)

45.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 1 - 36 3.6e-10 gag-polypeptide of LTR copia-type
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: OG0000106)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G20980 AT3G21000
fragaria_vesca FvH4_1g15931 FvH4_1g15931 FvH4_1g18381 FvH4_1g18382 FvH4_1g22571 FvH4_1g24950 FvH4_1g29372 FvH4_2g03582 FvH4_2g09851 FvH4_2g13112 FvH4_2g20843 FvH4_2g22701 FvH4_2g22702 FvH4_2g23403 FvH4_2g40201 FvH4_3g03542 FvH4_3g03543 FvH4_3g04761 FvH4_3g10464 FvH4_3g12741 FvH4_3g15781 FvH4_3g30981 FvH4_4g00985 FvH4_4g07035 FvH4_4g08192 FvH4_4g08211 FvH4_4g08553 FvH4_4g14242 FvH4_4g14243 FvH4_4g14641 FvH4_4g14843 FvH4_4g14844 FvH4_4g15061 FvH4_4g16281 FvH4_4g19152 FvH4_4g26451 FvH4_5g06442 FvH4_5g22521 FvH4_5g24301 FvH4_5g38641 FvH4_6g02393 FvH4_6g12782 FvH4_6g13871 FvH4_6g19391 FvH4_6g20105 FvH4_6g21292 FvH4_6g23581 FvH4_6g29153 FvH4_6g29691 FvH4_6g30871 FvH4_6g33351 FvH4_6g37042 FvH4_6g38781 FvH4_6g40340 FvH4_7g11221 FvH4_7g23352 FvH4_7g23352 FvH4_7g31212 FvH4_7g32172 FvH4_7g32173 FvH4_7g33701
malus_domestica MD03G1006900.v1.1 MD04G1039100.v1.1 MD04G1239100.v1.1 MD05G1048700.v1.1 MD08G1001800.v1.1 MD09G1165800.v1.1 MD11G1065200.v1.1 MD11G1138200.v1.1 MD14G1033300.v1.1 MD14G1173900.v1.1 MD15G1218200.v1.1 MD16G1034000.v1.1
prunus_persica Prupe.1G219500_v2.0.a1 Prupe.2G169400_v2.0.a1 Prupe.4G109700_v2.0.a1 Prupe.7G022000_v2.0.a1
pyrus_communis pycom01g02000 pycom02g13350 pycom03g01010 pycom04g05000 pycom04g06100 pycom05g05580 pycom05g09950 pycom05g13280 pycom05g26610 pycom06g05940 pycom06g07760 pycom07g06120 pycom07g24780 pycom08g08820 pycom09g03600 pycom09g07200 pycom10g01280 pycom10g06730 pycom10g08410 pycom10g25520 pycom11g00470 pycom11g05250 pycom11g25180 pycom12g08050 pycom13g14760 pycom13g28170 pycom15g14310 pycom15g19880 pycom15g24230 pycom15g33640 pycom16g02150 pycom16g16240 pycom16g20050 pycom16g21090 pycom17g06100
rosa_chinensis RchiOBHm_Chr1g0322161 RchiOBHm_Chr1g0326341 RchiOBHm_Chr1g0357701 RchiOBHm_Chr1g0379861 RchiOBHm_Chr1g0383421 RchiOBHm_Chr2g0093981 RchiOBHm_Chr2g0139051 RchiOBHm_Chr2g0145501 RchiOBHm_Chr3g0450971 RchiOBHm_Chr3g0451441 RchiOBHm_Chr3g0457411 RchiOBHm_Chr4g0436261 RchiOBHm_Chr5g0051431 RchiOBHm_Chr5g0064031 RchiOBHm_Chr5g0073141 RchiOBHm_Chr5g0080061 RchiOBHm_Chr7g0200561 RchiOBHm_Chr7g0235911
rosa_laevigata RLG00000000145 RLG00000000429 RLG00000020339 RLG00000035212
rosa_multiflora Rmu_co7977988.1_g000001 Rmu_co8037866.1_g000001 Rmu_co8243895.1_g000001 Rmu_co8363787.1_g000001 Rmu_co8381003.1_g000001 Rmu_sc0000263.1_g000006 Rmu_sc0000349.1_g000002 Rmu_sc0000455.1_g000031 Rmu_sc0000936.1_g000022 Rmu_sc0001035.1_g000023 Rmu_sc0001169.1_g000019 Rmu_sc0001250.1_g000026 Rmu_sc0002200.1_g000051 Rmu_sc0002230.1_g000027 Rmu_sc0002591.1_g000039 Rmu_sc0003182.1_g000003 Rmu_sc0003441.1_g000068 Rmu_sc0003722.1_g000018 Rmu_sc0003764.1_g000007 Rmu_sc0006014.1_g000016 Rmu_sc0012582.1_g000002 Rmu_sc0013519.1_g000002 Rmu_sc0014550.1_g000005 Rmu_sc0014857.1_g000007 Rmu_sc0019855.1_g000001 Rmu_sc0030839.1_g000001 Rmu_sc0031308.1_g000001
rosa_roxburghii Rroxscaffold_1G00011290 Rroxscaffold_1G00041340 Rroxscaffold_1G00053780 Rroxscaffold_1G00059130 Rroxscaffold_1G00061580 Rroxscaffold_2G00080940 Rroxscaffold_2G00109540 Rroxscaffold_3G00228400 Rroxscaffold_3G00237710 Rroxscaffold_4G00285210 Rroxscaffold_4G00299600 Rroxscaffold_4G00324940 Rroxscaffold_4G00330580 Rroxscaffold_5G00333000 Rroxscaffold_5G00347920 Rroxscaffold_5G00375310 Rroxscaffold_6G00394760 Rroxscaffold_6G00406260 Rroxscaffold_7G00165690 Rroxscaffold_7G00187680
rosa_rugosa Rorug01G0050200 Rorug02G0273800 Rorug06G0490600 Rorug06G0490600 Rorug06G0490700
rosa_samantha Rh1AG348400 Rh5AG222600 Rh6DG000500 Rh6DG194500 Rh7BG452700
rosa_wichuraiana Rw0G003060 Rw0G010530 Rw0G012970 Rw0G022560 Rw0G023390 Rw1G001270 Rw1G001530 Rw1G006070 Rw1G008210 Rw1G022090 Rw1G023320 Rw2G003790 Rw2G004140 Rw2G005280 Rw2G006460 Rw2G019620 Rw2G019840 Rw2G022530 Rw2G023280 Rw2G024990 Rw2G042380 Rw2G051390 Rw3G001640 Rw3G016720 Rw3G017100 Rw3G020890 Rw3G020900 Rw3G021100 Rw4G004820 Rw4G014950 Rw4G030920 Rw4G031400 Rw5G008500 Rw5G017950 Rw5G020170 Rw5G030160 Rw5G033050 Rw5G034640 Rw5G043920 Rw6G005060 Rw6G005540 Rw6G006720 Rw6G008460 Rw6G008670 Rw6G014780 Rw6G019100 Rw6G019350 Rw6G026310 Rw7G016810 Rw7G019180 Rw7G022890 Rw7G025880 Rw7G026390 Rw7G028340 Rw7G034850 Rw7G035170 Rw7G035420 Rw7G037990 Rw7G041560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 46
AccI GTMKAC 1 cut(s) 630
AciI CCGC 3 cut(s) 23, 554, 642
AclWI GGATC 4 cut(s) 228, 482, 495, 711
AcsI RAATTY 2 cut(s) 238, 401
AcuI CTGAAG 1 cut(s) 714
AfaI GTAC 1 cut(s) 769
AfiI CCNNNNNNNGG 2 cut(s) 190, 1010
AflIII ACRYGT 1 cut(s) 794
AgsI TTSAA 5 cut(s) 263, 325, 445, 458, 814
AleI CACNNNNGTG 1 cut(s) 279
AluBI AGCT 6 cut(s) 86, 453, 501, 590, 785, 940
AluI AGCT 6 cut(s) 86, 453, 501, 590, 785, 940
Alw21I GWGCWC 1 cut(s) 787
AlwI GGATC 4 cut(s) 228, 482, 495, 711
AlwNI CAGNNNCTG 1 cut(s) 584
AoxI GGCC 2 cut(s) 610, 945
ApeKI GCWGC 3 cut(s) 383, 386, 587
ApoI RAATTY 2 cut(s) 238, 401
ArsI GACNNNNNNTTYG 2 cut(s) 149, 181
Asp700I GAANNNNTTC 2 cut(s) 295, 897
AspS9I GGNCC 2 cut(s) 610, 946
AsuHPI GGTGA 1 cut(s) 173
BaeGI GKGCMC 1 cut(s) 49
BaeI ACNNNNGTAYC 2 cut(s) 751, 784
BamHI GGATCC 1 cut(s) 487
BanI GGYRCC 1 cut(s) 46
BanII GRGCYC 1 cut(s) 787
BarI GAAGNNNNNNTAC 2 cut(s) 255, 287
BbsI GAAGAC 2 cut(s) 425, 900
Bbv12I GWGCWC 1 cut(s) 787
BbvI GCAGC 3 cut(s) 395, 398, 599
BccI CCATC 3 cut(s) 55, 662, 1022
BceAI ACGGC 2 cut(s) 279, 822
BciVI GTATCC 1 cut(s) 878
BfaI CTAG 2 cut(s) 195, 209
BfmI CTRYAG 2 cut(s) 570, 585
BfuI GTATCC 1 cut(s) 878
BisI GCNGC 5 cut(s) 384, 387, 555, 588, 642
BlsI GCNGC 5 cut(s) 385, 388, 556, 589, 643
BmgT120I GGNCC 2 cut(s) 610, 946
BmiI GGNNCC 2 cut(s) 48, 489
BmsI GCATC 3 cut(s) 104, 370, 862
BoxI GACNNNNGTC 1 cut(s) 711
BpiI GAAGAC 2 cut(s) 425, 900
BpuEI CTTGAG 1 cut(s) 523
BsaJI CCNNGG 1 cut(s) 466
Bsc4I CCNNNNNNNGG 2 cut(s) 190, 1010
BseDI CCNNGG 1 cut(s) 466
BseGI GGATG 4 cut(s) 336, 343, 877, 1033
BseLI CCNNNNNNNGG 2 cut(s) 190, 1010
BseMII CTCAG 1 cut(s) 891
BseRI GAGGAG 1 cut(s) 640
BseSI GKGCMC 1 cut(s) 49
BseXI GCAGC 3 cut(s) 395, 398, 599
Bsh1285I CGRYCG 1 cut(s) 1011
BshFI GGCC 2 cut(s) 612, 947
BshNI GGYRCC 1 cut(s) 46
BsiEI CGRYCG 1 cut(s) 1011
BsiHKAI GWGCWC 1 cut(s) 787
BslI CCNNNNNNNGG 2 cut(s) 190, 1010
BsnI GGCC 2 cut(s) 612, 947
Bsp1286I GDGCHC 2 cut(s) 49, 787
Bsp143I GATC 4 cut(s) 220, 487, 716, 1008
BspACI CCGC 3 cut(s) 23, 554, 642
BspANI GGCC 2 cut(s) 612, 947
BspCNI CTCAG 1 cut(s) 890
BspLI GGNNCC 2 cut(s) 48, 489
BspMAI CTGCAG 2 cut(s) 574, 589
BspPI GGATC 4 cut(s) 228, 482, 495, 711
BspT107I GGYRCC 1 cut(s) 46
BssECI CCNNGG 1 cut(s) 466
BssMI GATC 4 cut(s) 220, 487, 716, 1008
Bst4CI ACNGT 2 cut(s) 185, 281
BstAPI GCANNNNNTGC 1 cut(s) 872
BstDEI CTNAG 2 cut(s) 12, 877
BstDSI CCRYGG 1 cut(s) 466
BstF5I GGATG 4 cut(s) 336, 343, 877, 1033
BstKTI GATC 4 cut(s) 223, 490, 719, 1011
BstMBI GATC 4 cut(s) 220, 487, 716, 1008
BstMCI CGRYCG 1 cut(s) 1011
BstMWI GCNNNNNNNGC 2 cut(s) 538, 872
BstNSI RCATGY 1 cut(s) 798
BstPAI GACNNNNGTC 1 cut(s) 711
BstSFI CTRYAG 2 cut(s) 570, 585
BstSLI GKGCMC 1 cut(s) 49
BstV1I GCAGC 3 cut(s) 395, 398, 599
BstV2I GAAGAC 2 cut(s) 425, 900
BstX2I RGATCY 1 cut(s) 487
BstYI RGATCY 1 cut(s) 487
BsuI GTATCC 1 cut(s) 878
BsuRI GGCC 2 cut(s) 612, 947
BtgI CCRYGG 1 cut(s) 466
BtsCI GGATG 4 cut(s) 336, 343, 877, 1033
BtsI GCAGTG 1 cut(s) 567
BtsIMutI CAGTG 1 cut(s) 567
CaiI CAGNNNCTG 1 cut(s) 584
Cfr13I GGNCC 2 cut(s) 610, 946
CseI GACGC 1 cut(s) 356
Csp6I GTAC 1 cut(s) 768
CviAII CATG 6 cut(s) 354, 369, 406, 533, 795, 943
CviQI GTAC 1 cut(s) 768
DdeI CTNAG 2 cut(s) 12, 877
DpnI GATC 4 cut(s) 222, 489, 718, 1010
DpnII GATC 4 cut(s) 220, 487, 716, 1008
EciI GGCGGA 1 cut(s) 38
Ecl136II GAGCTC 1 cut(s) 785
Eco24I GRGCYC 1 cut(s) 787
Eco53kI GAGCTC 1 cut(s) 785
Eco57I CTGAAG 1 cut(s) 714
EcoICRI GAGCTC 1 cut(s) 785
EcoT38I GRGCYC 1 cut(s) 787
FaeI CATG 6 cut(s) 357, 372, 409, 536, 798, 946
FatI CATG 6 cut(s) 353, 368, 405, 532, 794, 942
FauNDI CATATG 1 cut(s) 514
FblI GTMKAC 1 cut(s) 630
Fnu4HI GCNGC 5 cut(s) 384, 387, 555, 588, 642
FokI GGATG 3 cut(s) 343, 350, 884
FriOI GRGCYC 1 cut(s) 787
Fsp4HI GCNGC 5 cut(s) 384, 387, 555, 588, 642
FspBI CTAG 2 cut(s) 195, 209
GluI GCNGC 5 cut(s) 384, 387, 555, 588, 642
HaeIII GGCC 2 cut(s) 612, 947
HgaI GACGC 1 cut(s) 356
Hin1II CATG 6 cut(s) 357, 372, 409, 536, 798, 946
HincII GTYRAC 1 cut(s) 923
HindII GTYRAC 1 cut(s) 923
HindIII AAGCTT 2 cut(s) 451, 499
HinfI GANTC 5 cut(s) 178, 581, 617, 647, 676
HphI GGTGA 1 cut(s) 173
Hpy166II GTNNAC 3 cut(s) 631, 842, 923
Hpy188I TCNGA 5 cut(s) 234, 257, 694, 721, 880
Hpy188III TCNNGA 4 cut(s) 76, 578, 667, 680
Hpy8I GTNNAC 3 cut(s) 631, 842, 923
Hpy99I CGWCG 1 cut(s) 717
HpyAV CCTTC 5 cut(s) 60, 257, 375, 689, 722
HpyCH4III ACNGT 2 cut(s) 185, 281
HpyCH4V TGCA 9 cut(s) 117, 372, 383, 572, 587, 780, 807, 860, 866
HpyF10VI GCNNNNNNNGC 2 cut(s) 538, 872
HpyF3I CTNAG 2 cut(s) 12, 877
Hsp92II CATG 6 cut(s) 357, 372, 409, 536, 798, 946
Kzo9I GATC 4 cut(s) 220, 487, 716, 1008
LmnI GCTCC 2 cut(s) 355, 698
LpnPI CCDG 8 cut(s) 72, 263, 272, 388, 533, 591, 619, 854
Lsp1109I GCAGC 3 cut(s) 395, 398, 599
LweI GCATC 3 cut(s) 104, 370, 862
MaeI CTAG 2 cut(s) 195, 209
MaeIII GTNAC 2 cut(s) 301, 680
MalI GATC 4 cut(s) 222, 489, 718, 1010
MboI GATC 4 cut(s) 220, 487, 716, 1008
MboII GAAGA 6 cut(s) 430, 859, 905, 954, 1010, 1028
MflI RGATCY 1 cut(s) 487
MhlI GDGCHC 2 cut(s) 49, 787
MluCI AATT 7 cut(s) 31, 133, 212, 238, 258, 401, 991
MlyI GAGTC 1 cut(s) 641
MnlI CCTC 9 cut(s) 19, 184, 403, 501, 661, 874, 886, 912, 941
MroXI GAANNNNTTC 2 cut(s) 295, 897
MseI TTAA 4 cut(s) 108, 215, 396, 600
MslI CAYNNNNRTG 1 cut(s) 279
MspA1I CMGCKG 1 cut(s) 644
MwoI GCNNNNNNNGC 2 cut(s) 538, 872
NdeI CATATG 1 cut(s) 514
NdeII GATC 4 cut(s) 220, 487, 716, 1008
NlaIII CATG 6 cut(s) 357, 372, 409, 536, 798, 946
NlaIV GGNNCC 2 cut(s) 48, 489
NmeAIII GCCGAG 1 cut(s) 638
NmuCI GTSAC 2 cut(s) 301, 680
NspI RCATGY 1 cut(s) 798
OliI CACNNNNGTG 1 cut(s) 279
PciI ACATGT 1 cut(s) 794
PdmI GAANNNNTTC 2 cut(s) 295, 897
PfeI GAWTC 4 cut(s) 178, 581, 617, 676
PkrI GCNGC 5 cut(s) 385, 388, 556, 589, 643
Ple19I CGATCG 1 cut(s) 1011
PleI GAGTC 1 cut(s) 641
PpsI GAGTC 1 cut(s) 641
PscI ACATGT 1 cut(s) 794
PshAI GACNNNNGTC 1 cut(s) 711
Psp124BI GAGCTC 1 cut(s) 787
PspN4I GGNNCC 2 cut(s) 48, 489
PspPI GGNCC 2 cut(s) 610, 946
PstI CTGCAG 2 cut(s) 574, 589
PstNI CAGNNNCTG 1 cut(s) 584
PsuI RGATCY 1 cut(s) 487
PvuI CGATCG 1 cut(s) 1011
RsaI GTAC 1 cut(s) 769
RsaNI GTAC 1 cut(s) 768
RseI CAYNNNNRTG 1 cut(s) 279
SacI GAGCTC 1 cut(s) 787
SaqAI TTAA 4 cut(s) 108, 215, 396, 600
SatI GCNGC 5 cut(s) 384, 387, 555, 588, 642
Sau3AI GATC 4 cut(s) 220, 487, 716, 1008
Sau96I GGNCC 2 cut(s) 610, 946
SchI GAGTC 1 cut(s) 641
SduI GDGCHC 2 cut(s) 49, 787
SfaNI GCATC 3 cut(s) 104, 370, 862
SfcI CTRYAG 2 cut(s) 570, 585
SmiMI CAYNNNNRTG 1 cut(s) 279
SmlI CTYRAG 1 cut(s) 502
SmoI CTYRAG 1 cut(s) 502
Sse9I AATT 7 cut(s) 31, 133, 212, 238, 258, 401, 991
SsiI CCGC 3 cut(s) 23, 554, 642
SspI AATATT 1 cut(s) 776
SspMI CTAG 2 cut(s) 195, 209
SstI GAGCTC 1 cut(s) 787
TaaI ACNGT 2 cut(s) 185, 281
TaqI TCGA 3 cut(s) 53, 69, 715
TaqII GACCGA 1 cut(s) 699
TasI AATT 7 cut(s) 31, 133, 212, 238, 258, 401, 991
TauI GCSGC 2 cut(s) 557, 644
TfiI GAWTC 4 cut(s) 178, 581, 617, 676
Tru1I TTAA 4 cut(s) 108, 215, 396, 600
Tru9I TTAA 4 cut(s) 108, 215, 396, 600
TscAI CASTG 1 cut(s) 574
TseFI GTSAC 2 cut(s) 301, 680
TseI GCWGC 3 cut(s) 383, 386, 587
Tsp45I GTSAC 2 cut(s) 301, 680
TspDTI ATGAA 6 cut(s) 357, 394, 440, 462, 906, 1011
TspGWI ACGGA 4 cut(s) 232, 289, 332, 586
TspRI CASTG 1 cut(s) 574
XapI RAATTY 2 cut(s) 238, 401
XceI RCATGY 1 cut(s) 798
XmiI GTMKAC 1 cut(s) 630
XmnI GAANNNNTTC 2 cut(s) 295, 897
XspI CTAG 2 cut(s) 195, 209
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.