FvH4_3g35231

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000154
Physical Location & Seq
Forward (+)
30399137 .. 30399969
833 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g35231.t1

Sequence Viewer

Length: 723 bp
ATGAAGGTTGAGTTCGATATGACAGACTTGGGGAAGATGAAATACTTTCTTGGTGTTGAAGTTGTGCAAAGGTCAGAAGGTATCTACTTGAGTCAAAGAAAGTATGCATGTGAATTGCTTGAGAGGTTTGGATTATGTAAAGGCAACTCAGTGAAGAATCCTATTGCTCCCGGTTCTAAGTTATCAATGAATGGAGAAGGTGCTAAAGTTGATACAACCGTGTACAAGCGGTTAATTGGGAGTCTCATGTACATCACTGCAACTCGGTCGGATTTAATATATGTGAGAGGAGGTACTGGTGGGCTCTTGGCTTATACTGACAGTGATTATGCTGGGGACACTGATGATAGAAAGAGTACATCTGGGTATGTGTTTATGTTGAATGGTGGAGTAGTTTCTTGGGCTTCAAAGAAGCAACCGGTGGTGACTTTGTCTACCACTGAGGCAGAGCTTGTGGCAGCAGCTTTGTGTGCTTGTCAGTGTGTGTGGATGCGAAGAGTGTTAGAGAAGATTGGGAATCCACAAAGCAAATGTACTATCATGATGTGTGCCAACAGTTCGACGATTAAGTTATCTAAGAATCCGGTTATGCATGGAAGAAGCAAGCATATAGATGTAAGATTCCATTTCTTGAGGGATCTTACAAAGGAGGAGGTGGTGGAGCTGGTTCATTGTGATACAGGAGAACAATTGGCTGATATCATGAAAACCATTAAAACTTGA
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 gag_pre-integrs rve

Protein Analysis

241

Amino Acids

26.56

Weight (kDa)

8.82

Isoelectric Point (pI)

34.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 1 - 56 7.3e-10 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: OG0000154)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata RLG00000026946
rosa_roxburghii Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 434
AciI CCGC 1 cut(s) 229
AclWI GGATC 1 cut(s) 645
AfaI GTAC 5 cut(s) 224, 251, 295, 358, 535
AgeI ACCGGT 1 cut(s) 418
AgsI TTSAA 3 cut(s) 59, 382, 408
AluBI AGCT 3 cut(s) 451, 464, 664
AluI AGCT 3 cut(s) 451, 464, 664
Alw26I GTCTC 1 cut(s) 248
AlwI GGATC 1 cut(s) 645
ApeKI GCWGC 2 cut(s) 458, 461
AsiGI ACCGGT 1 cut(s) 418
AsuC2I CCSGG 1 cut(s) 171
AsuHPI GGTGA 1 cut(s) 436
BaeI ACNNNNGTAYC 2 cut(s) 204, 237
BanII GRGCYC 1 cut(s) 306
BarI GAAGNNNNNNTAC 2 cut(s) 26, 58
BbvI GCAGC 2 cut(s) 470, 473
BcgI CGANNNNNNTGC 2 cut(s) 249, 283
BcnI CCSGG 1 cut(s) 171
BcoDI GTCTC 1 cut(s) 248
BisI GCNGC 2 cut(s) 459, 462
BlsI GCNGC 2 cut(s) 460, 463
Bme1390I CCNGG 1 cut(s) 171
BmrFI CCNGG 1 cut(s) 171
BmsI GCATC 1 cut(s) 480
BpuEI CTTGAG 3 cut(s) 109, 140, 652
BpuMI CCSGG 1 cut(s) 171
BsaWI WCCGGW 2 cut(s) 418, 583
Bse118I RCCGGY 1 cut(s) 418
Bse1I ACTGG 1 cut(s) 301
BseGI GGATG 1 cut(s) 495
BseMII CTCAG 2 cut(s) 162, 432
BseNI ACTGG 1 cut(s) 301
BseRI GAGGAG 2 cut(s) 303, 665
BseXI GCAGC 2 cut(s) 470, 473
BseYI CCCAGC 1 cut(s) 332
Bsh1285I CGRYCG 1 cut(s) 269
BshTI ACCGGT 1 cut(s) 418
BsiEI CGRYCG 1 cut(s) 269
BsiSI CCGG 3 cut(s) 171, 419, 584
BslFI GGGAC 1 cut(s) 350
BsmAI GTCTC 1 cut(s) 248
BsmFI GGGAC 1 cut(s) 350
Bsp1286I GDGCHC 1 cut(s) 306
Bsp1407I TGTACA 2 cut(s) 222, 249
Bsp143I GATC 1 cut(s) 637
BspACI CCGC 1 cut(s) 229
BspCNI CTCAG 2 cut(s) 161, 433
BspHI TCATGA 2 cut(s) 540, 702
BspPI GGATC 1 cut(s) 645
BsrFI RCCGGY 1 cut(s) 418
BsrGI TGTACA 2 cut(s) 222, 249
BsrI ACTGG 1 cut(s) 301
BssAI RCCGGY 1 cut(s) 418
BssMI GATC 1 cut(s) 637
Bst4CI ACNGT 3 cut(s) 220, 323, 557
Bst6I CTCTTC 1 cut(s) 490
BstAUI TGTACA 2 cut(s) 222, 249
BstC8I GCNNGC 1 cut(s) 605
BstDEI CTNAG 4 cut(s) 148, 177, 441, 576
BstF5I GGATG 1 cut(s) 495
BstKTI GATC 1 cut(s) 640
BstMAI GTCTC 1 cut(s) 248
BstMBI GATC 1 cut(s) 637
BstMCI CGRYCG 1 cut(s) 269
BstMWI GCNNNNNNNGC 1 cut(s) 470
BstNSI RCATGY 1 cut(s) 111
BstSCI CCNGG 1 cut(s) 169
BstV1I GCAGC 2 cut(s) 470, 473
BstX2I RGATCY 1 cut(s) 637
BstYI RGATCY 1 cut(s) 637
BtsCI GGATG 1 cut(s) 495
BtsI GCAGTG 1 cut(s) 255
BtsIMutI CAGTG 6 cut(s) 156, 255, 328, 339, 438, 485
Cac8I GCNNGC 1 cut(s) 605
CciI TCATGA 2 cut(s) 540, 702
Cfr10I RCCGGY 1 cut(s) 418
Csp6I GTAC 5 cut(s) 223, 250, 294, 357, 534
CspAI ACCGGT 1 cut(s) 418
CviAII CATG 5 cut(s) 108, 247, 541, 593, 703
CviJI RGCY 7 cut(s) 304, 311, 404, 451, 464, 664, 695
CviKI_1 RGCY 7 cut(s) 304, 311, 404, 451, 464, 664, 695
CviQI GTAC 5 cut(s) 223, 250, 294, 357, 534
DdeI CTNAG 4 cut(s) 148, 177, 441, 576
DpnI GATC 1 cut(s) 639
DpnII GATC 1 cut(s) 637
Eam1104I CTCTTC 1 cut(s) 490
EarI CTCTTC 1 cut(s) 490
Eco24I GRGCYC 1 cut(s) 306
Eco32I GATATC 1 cut(s) 700
EcoRV GATATC 1 cut(s) 700
EcoT22I ATGCAT 2 cut(s) 109, 594
EcoT38I GRGCYC 1 cut(s) 306
FaeI CATG 5 cut(s) 111, 250, 544, 596, 706
FaqI GGGAC 1 cut(s) 350
FatI CATG 5 cut(s) 107, 246, 540, 592, 702
FblI GTMKAC 1 cut(s) 434
Fnu4HI GCNGC 2 cut(s) 459, 462
FokI GGATG 1 cut(s) 502
FriOI GRGCYC 1 cut(s) 306
Fsp4HI GCNGC 2 cut(s) 459, 462
GluI GCNGC 2 cut(s) 459, 462
GsaI CCCAGC 1 cut(s) 336
HapII CCGG 3 cut(s) 171, 419, 584
Hin1II CATG 5 cut(s) 111, 250, 544, 596, 706
HinfI GANTC 6 cut(s) 91, 157, 241, 517, 580, 621
HpaII CCGG 3 cut(s) 171, 419, 584
HphI GGTGA 1 cut(s) 436
Hpy166II GTNNAC 2 cut(s) 223, 435
Hpy188I TCNGA 2 cut(s) 76, 271
Hpy188III TCNNGA 3 cut(s) 541, 631, 703
Hpy8I GTNNAC 2 cut(s) 223, 435
Hpy99I CGWCG 1 cut(s) 565
HpyAV CCTTC 2 cut(s) 71, 191
HpyCH4III ACNGT 3 cut(s) 220, 323, 557
HpyCH4V TGCA 4 cut(s) 67, 107, 260, 592
HpyF10VI GCNNNNNNNGC 1 cut(s) 470
HpyF3I CTNAG 4 cut(s) 148, 177, 441, 576
Hsp92II CATG 5 cut(s) 111, 250, 544, 596, 706
Kzo9I GATC 1 cut(s) 637
LmnI GCTCC 2 cut(s) 172, 661
LpnPI CCDG 8 cut(s) 184, 282, 318, 348, 432, 597, 650, 666
Lsp1109I GCAGC 2 cut(s) 470, 473
LweI GCATC 1 cut(s) 480
MaeIII GTNAC 1 cut(s) 424
MalI GATC 1 cut(s) 639
MboI GATC 1 cut(s) 637
MboII GAAGA 5 cut(s) 46, 166, 507, 520, 609
MfeI CAATTG 1 cut(s) 689
MflI RGATCY 1 cut(s) 637
MhlI GDGCHC 1 cut(s) 306
MluCI AATT 3 cut(s) 113, 234, 689
MlyI GAGTC 2 cut(s) 100, 250
MmeI TCCRAC 1 cut(s) 249
MnlI CCTC 7 cut(s) 117, 281, 284, 436, 627, 643, 646
Mph1103I ATGCAT 2 cut(s) 109, 594
MseI TTAA 4 cut(s) 233, 275, 567, 714
MslI CAYNNNNRTG 1 cut(s) 612
MspI CCGG 3 cut(s) 171, 419, 584
MspR9I CCNGG 1 cut(s) 171
MunI CAATTG 1 cut(s) 689
MwoI GCNNNNNNNGC 1 cut(s) 470
NciI CCSGG 1 cut(s) 171
NdeII GATC 1 cut(s) 637
NlaIII CATG 5 cut(s) 111, 250, 544, 596, 706
NmuCI GTSAC 1 cut(s) 424
NsiI ATGCAT 2 cut(s) 109, 594
NspI RCATGY 1 cut(s) 111
PagI TCATGA 2 cut(s) 540, 702
PfeI GAWTC 4 cut(s) 157, 517, 580, 621
PflFI GACNNNGTC 1 cut(s) 430
PinAI ACCGGT 1 cut(s) 418
PkrI GCNGC 2 cut(s) 460, 463
PleI GAGTC 2 cut(s) 99, 249
PpsI GAGTC 2 cut(s) 99, 249
PspFI CCCAGC 1 cut(s) 332
PsuI RGATCY 1 cut(s) 637
PsyI GACNNNGTC 1 cut(s) 430
RsaI GTAC 5 cut(s) 224, 251, 295, 358, 535
RsaNI GTAC 5 cut(s) 223, 250, 294, 357, 534
RseI CAYNNNNRTG 1 cut(s) 612
SaqAI TTAA 4 cut(s) 233, 275, 567, 714
SatI GCNGC 2 cut(s) 459, 462
Sau3AI GATC 1 cut(s) 637
SchI GAGTC 2 cut(s) 100, 250
ScrFI CCNGG 1 cut(s) 171
SduI GDGCHC 1 cut(s) 306
SfaNI GCATC 1 cut(s) 480
SmiMI CAYNNNNRTG 1 cut(s) 612
SmlI CTYRAG 3 cut(s) 88, 119, 631
SmoI CTYRAG 3 cut(s) 88, 119, 631
Sse9I AATT 3 cut(s) 113, 234, 689
SsiI CCGC 1 cut(s) 229
StyD4I CCNGG 1 cut(s) 169
TaaI ACNGT 3 cut(s) 220, 323, 557
TaqI TCGA 2 cut(s) 15, 560
TaqII GACCGA 1 cut(s) 255
TasI AATT 3 cut(s) 113, 234, 689
TatI WGTACW 4 cut(s) 222, 249, 356, 533
TfiI GAWTC 4 cut(s) 157, 517, 580, 621
Tru1I TTAA 4 cut(s) 233, 275, 567, 714
Tru9I TTAA 4 cut(s) 233, 275, 567, 714
TscAI CASTG 6 cut(s) 156, 262, 328, 346, 445, 485
TseFI GTSAC 1 cut(s) 424
TseI GCWGC 2 cut(s) 458, 461
Tsp45I GTSAC 1 cut(s) 424
TspDTI ATGAA 5 cut(s) 17, 53, 203, 659, 719
TspRI CASTG 6 cut(s) 156, 262, 328, 346, 445, 485
Tth111I GACNNNGTC 1 cut(s) 430
XceI RCATGY 1 cut(s) 111
XmiI GTMKAC 1 cut(s) 434
Zsp2I ATGCAT 2 cut(s) 109, 594
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.