FvH4_6g20952

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0000250
Physical Location & Seq
Reverse (-)
14489391 .. 14489909
519 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g20952.t1

Sequence Viewer

Length: 519 bp
ATGGACGAGATTCTGGCATATAAAAAGGATGAAACACTTCCAACGGCAAAGGTAGCCGCCCAAACCCTGATAAGAAGAGCAACAAGGTATACAATCATGGACGGCAAGCTGTACCGCCAAAGCTTTAAGTTTCCACACTGGAAATGTATAATCTTAGAGGAGGGCAGAGATGTCCTCAATAGAATCCACAGCAGAGATAGTGATAACCATTCAAGTTACCATTCCTTGGCAAACAAGGCAATGCGCTATGGGTACTTCTGGCCAACTATGACAACATATGCAGAGGATGTAGCAAAGACATGCATCAAATGTCGCAAGTTTGCAATAATGCCTAGAGCACCAACAGAGCCGCTTTCAATTATCGTGGGACCATGGATAGGTTCCATGTGGGGGCTAGACTTGATGGGGTCGTTTCTAGTGGTTAAGAGCCAGTTCAGGTATATCATTGTGGGAATTGATTACACCACCAAATGGATTGAAGCTGTTCCGCTCGTTAAAATCAACACACATCGTGTGTAA
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 Retrotrans_gag rve

Protein Analysis

173

Amino Acids

19.97

Weight (kDa)

9.54

Isoelectric Point (pI)

30.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Integrase_H2C2 PF17921 56 - 107 3.1e-06 Integrase zinc binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000250)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g22373 FvH4_1g22374 FvH4_1g25831 FvH4_1g28031 FvH4_2g11354 FvH4_3g11301 FvH4_3g11302 FvH4_3g14364 FvH4_3g20862 FvH4_4g15482 FvH4_4g15483 FvH4_4g15484 FvH4_5g25502 FvH4_5g37242 FvH4_6g18432 FvH4_6g18433 FvH4_6g20952 FvH4_7g02201 FvH4_7g10991
prunus_persica Prupe.6G166700_v2.0.a1
pyrus_communis pycom01g03860 pycom02g16130 pycom05g08340 pycom07g08280 pycom16g20980 pycom16g25810
rosa_chinensis RchiOBHm_Chr5g0018261
rosa_laevigata RLG00000022447
rosa_multiflora Rmu_co7963284.1_g000001 Rmu_co7968088.1_g000001 Rmu_co8036800.1_g000001 Rmu_co8110294.1_g000001 Rmu_co8291955.1_g000001 Rmu_co8396209.1_g000002 Rmu_co8413879.1_g000001 Rmu_co8464165.1_g000001 Rmu_co8469565.1_g000001 Rmu_co8485695.1_g000003 Rmu_co8486821.1_g000003 Rmu_co8515379.1_g000001 Rmu_sc0000239.1_g000074 Rmu_sc0000327.1_g000028 Rmu_sc0000509.1_g000002 Rmu_sc0000677.1_g000042 Rmu_sc0000756.1_g000032 Rmu_sc0000782.1_g000013 Rmu_sc0001144.1_g000044 Rmu_sc0001861.1_g000003 Rmu_sc0002371.1_g000016 Rmu_sc0002451.1_g000061 Rmu_sc0002764.1_g000053 Rmu_sc0002868.1_g000041 Rmu_sc0003735.1_g000026 Rmu_sc0004654.1_g000006 Rmu_sc0005038.1_g000020 Rmu_sc0005236.1_g000001 Rmu_sc0006725.1_g000004 Rmu_sc0010685.1_g000001 Rmu_sc0011973.1_g000010 Rmu_sc0012722.1_g000001 Rmu_sc0015925.1_g000002 Rmu_sc0017188.1_g000001 Rmu_sc0021806.1_g000001 Rmu_sc0033125.1_g000001 Rmu_sc0038204.1_g000001 Rmu_ssc0000215.1_g000038
rosa_roxburghii Rroxscaffold_1G00001020 Rroxscaffold_1G00027520 Rroxscaffold_3G00228140 Rroxscaffold_4G00320850 Rroxscaffold_4G00321830 Rroxscaffold_4G00321840 Rroxscaffold_4G00332450 Rroxscaffold_5G00344360 Rroxscaffold_5G00365190 Rroxscaffold_5G00377320 Rroxscaffold_5G00377330 Rroxscaffold_7G00183080 Rroxscaffold_7G00184560 Rroxscaffold_7G00216010
rosa_rugosa Rorug02G0381000
rosa_samantha Rh1AG155000 Rh1AG167000 Rh2AG095000 Rh3BG335500 Rh4AG082900 Rh4CG090200 Rh5CG445500 Rh7DG403200
rosa_wichuraiana Rw0G001000 Rw0G014090 Rw0G019800 Rw0G020130 Rw0G020350 Rw1G002560 Rw1G013310 Rw1G014300 Rw1G014670 Rw1G016610 Rw1G021110 Rw1G024950 Rw1G028180 Rw2G020910 Rw2G024170 Rw2G024770 Rw2G029990 Rw2G031960 Rw2G034100 Rw3G013950 Rw3G028980 Rw3G029200 Rw4G004150 Rw4G008130 Rw4G012200 Rw4G018750 Rw4G019330 Rw4G021010 Rw4G022120 Rw4G030810 Rw5G015840 Rw5G015850 Rw5G022430 Rw5G022480 Rw5G026870 Rw5G033550 Rw6G009170 Rw6G010190 Rw6G011570 Rw6G018280 Rw6G023730 Rw7G025660 Rw7G029890 Rw7G031130 Rw7G042550

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 226, 471
AccBSI CCGCTC 1 cut(s) 490
AccI GTMKAC 1 cut(s) 89
AciI CCGC 4 cut(s) 57, 115, 350, 488
AcoI YGGCCR 1 cut(s) 260
AdeI CACNNNGTG 1 cut(s) 512
AfaI GTAC 2 cut(s) 113, 254
AfiI CCNNNNNNNGG 4 cut(s) 226, 377, 390, 471
AgsI TTSAA 3 cut(s) 213, 357, 479
AluBI AGCT 3 cut(s) 109, 123, 482
AluI AGCT 3 cut(s) 109, 123, 482
Alw21I GWGCWC 1 cut(s) 340
AoxI GGCC 1 cut(s) 260
Asp700I GAANNNNTTC 2 cut(s) 36, 483
AspLEI GCGC 1 cut(s) 246
AspS9I GGNCC 1 cut(s) 368
AvaII GGWCC 1 cut(s) 368
BalI TGGCCA 1 cut(s) 262
Bbv12I GWGCWC 1 cut(s) 340
BccI CCATC 1 cut(s) 397
BceAI ACGGC 2 cut(s) 60, 118
BfaI CTAG 3 cut(s) 333, 395, 416
BisI GCNGC 2 cut(s) 57, 350
BlsI GCNGC 2 cut(s) 58, 351
Bme18I GGWCC 1 cut(s) 368
BmgT120I GGNCC 1 cut(s) 368
BmiI GGNNCC 2 cut(s) 369, 382
BmsI GCATC 1 cut(s) 312
BplI GAGNNNNNCTC 2 cut(s) 159, 191
BsaJI CCNNGG 2 cut(s) 225, 371
Bsc4I CCNNNNNNNGG 4 cut(s) 226, 377, 390, 471
Bse1I ACTGG 2 cut(s) 143, 430
Bse3DI GCAATG 1 cut(s) 246
BseDI CCNNGG 2 cut(s) 225, 371
BseGI GGATG 2 cut(s) 34, 292
BseLI CCNNNNNNNGG 4 cut(s) 226, 377, 390, 471
BseMI GCAATG 1 cut(s) 246
BseNI ACTGG 2 cut(s) 143, 430
BseRI GAGGAG 1 cut(s) 173
BshFI GGCC 1 cut(s) 262
BsiHKAI GWGCWC 1 cut(s) 340
BslFI GGGAC 1 cut(s) 381
BslI CCNNNNNNNGG 4 cut(s) 226, 377, 390, 471
BsmFI GGGAC 1 cut(s) 381
BsnI GGCC 1 cut(s) 262
Bsp1286I GDGCHC 1 cut(s) 340
Bsp19I CCATGG 1 cut(s) 371
BspACI CCGC 4 cut(s) 57, 115, 350, 488
BspANI GGCC 1 cut(s) 262
BspLI GGNNCC 2 cut(s) 369, 382
BspQI GCTCTTC 1 cut(s) 70
BsrBI CCGCTC 1 cut(s) 490
BsrDI GCAATG 1 cut(s) 246
BsrI ACTGG 2 cut(s) 143, 430
BssECI CCNNGG 2 cut(s) 225, 371
BssNAI GTATAC 1 cut(s) 90
BssT1I CCWWGG 2 cut(s) 225, 371
Bst1107I GTATAC 1 cut(s) 90
Bst6I CTCTTC 1 cut(s) 70
BstC8I GCNNGC 1 cut(s) 107
BstDEI CTNAG 1 cut(s) 154
BstDSI CCRYGG 1 cut(s) 371
BstF5I GGATG 2 cut(s) 34, 292
BstHHI GCGC 1 cut(s) 246
BstMWI GCNNNNNNNGC 2 cut(s) 53, 236
BstNSI RCATGY 1 cut(s) 303
BstZ17I GTATAC 1 cut(s) 90
BsuRI GGCC 1 cut(s) 262
BtgI CCRYGG 1 cut(s) 371
BtsCI GGATG 2 cut(s) 34, 292
BtsIMutI CAGTG 1 cut(s) 136
Cac8I GCNNGC 1 cut(s) 107
CfoI GCGC 1 cut(s) 246
Cfr13I GGNCC 1 cut(s) 368
Csp6I GTAC 2 cut(s) 112, 253
CspCI CAANNNNNGTGG 2 cut(s) 345, 380
CviAII CATG 4 cut(s) 97, 300, 372, 385
CviJI RGCY 8 cut(s) 56, 109, 123, 262, 349, 394, 429, 482
CviKI_1 RGCY 8 cut(s) 56, 109, 123, 262, 349, 394, 429, 482
CviQI GTAC 2 cut(s) 112, 253
DdeI CTNAG 1 cut(s) 154
DraIII CACNNNGTG 1 cut(s) 512
EaeI YGGCCR 1 cut(s) 260
Eam1104I CTCTTC 1 cut(s) 70
EarI CTCTTC 1 cut(s) 70
Eco130I CCWWGG 2 cut(s) 225, 371
Eco47I GGWCC 1 cut(s) 368
EcoT14I CCWWGG 2 cut(s) 225, 371
EcoT22I ATGCAT 1 cut(s) 305
ErhI CCWWGG 2 cut(s) 225, 371
FaeI CATG 4 cut(s) 100, 303, 375, 388
FaqI GGGAC 1 cut(s) 381
FatI CATG 4 cut(s) 96, 299, 371, 384
FauNDI CATATG 1 cut(s) 277
FblI GTMKAC 1 cut(s) 89
Fnu4HI GCNGC 2 cut(s) 57, 350
FokI GGATG 2 cut(s) 41, 299
Fsp4HI GCNGC 2 cut(s) 57, 350
FspBI CTAG 3 cut(s) 333, 395, 416
GlaI GCGC 1 cut(s) 245
GluI GCNGC 2 cut(s) 57, 350
HaeIII GGCC 1 cut(s) 262
HhaI GCGC 1 cut(s) 246
Hin1II CATG 4 cut(s) 100, 303, 375, 388
Hin6I GCGC 1 cut(s) 244
HinP1I GCGC 1 cut(s) 244
HindIII AAGCTT 1 cut(s) 121
HinfI GANTC 2 cut(s) 10, 183
Hpy166II GTNNAC 1 cut(s) 90
Hpy8I GTNNAC 1 cut(s) 90
HpyCH4V TGCA 3 cut(s) 281, 303, 323
HpyF10VI GCNNNNNNNGC 2 cut(s) 53, 236
HpyF3I CTNAG 1 cut(s) 154
Hsp92II CATG 4 cut(s) 100, 303, 375, 388
HspAI GCGC 1 cut(s) 244
LguI GCTCTTC 1 cut(s) 70
LpnPI CCDG 5 cut(s) 80, 124, 244, 421, 443
LweI GCATC 1 cut(s) 312
MaeI CTAG 3 cut(s) 333, 395, 416
MaeIII GTNAC 1 cut(s) 215
MbiI CCGCTC 1 cut(s) 490
MboII GAAGA 1 cut(s) 87
MhlI GDGCHC 1 cut(s) 340
MlsI TGGCCA 1 cut(s) 262
MluCI AATT 2 cut(s) 357, 453
MluNI TGGCCA 1 cut(s) 262
MmeI TCCRAC 1 cut(s) 65
MnlI CCTC 4 cut(s) 151, 154, 185, 277
Mox20I TGGCCA 1 cut(s) 262
Mph1103I ATGCAT 1 cut(s) 305
MroXI GAANNNNTTC 2 cut(s) 36, 483
MscI TGGCCA 1 cut(s) 262
MseI TTAA 3 cut(s) 126, 423, 495
Msp20I TGGCCA 1 cut(s) 262
MwoI GCNNNNNNNGC 2 cut(s) 53, 236
NcoI CCATGG 1 cut(s) 371
NdeI CATATG 1 cut(s) 277
NlaIII CATG 4 cut(s) 100, 303, 375, 388
NlaIV GGNNCC 2 cut(s) 369, 382
NsiI ATGCAT 1 cut(s) 305
NspI RCATGY 1 cut(s) 303
PciSI GCTCTTC 1 cut(s) 70
PdmI GAANNNNTTC 2 cut(s) 36, 483
PfeI GAWTC 2 cut(s) 10, 183
PflMI CCANNNNNTGG 2 cut(s) 226, 471
PkrI GCNGC 2 cut(s) 58, 351
PspN4I GGNNCC 2 cut(s) 369, 382
PspPI GGNCC 1 cut(s) 368
RsaI GTAC 2 cut(s) 113, 254
RsaNI GTAC 2 cut(s) 112, 253
SapI GCTCTTC 1 cut(s) 70
SaqAI TTAA 3 cut(s) 126, 423, 495
SatI GCNGC 2 cut(s) 57, 350
Sau96I GGNCC 1 cut(s) 368
SduI GDGCHC 1 cut(s) 340
SetI ASST 7 cut(s) 54, 89, 111, 125, 382, 440, 484
SfaNI GCATC 1 cut(s) 312
SinI GGWCC 1 cut(s) 368
Sse9I AATT 2 cut(s) 357, 453
SsiI CCGC 4 cut(s) 57, 115, 350, 488
SspMI CTAG 3 cut(s) 333, 395, 416
StyI CCWWGG 2 cut(s) 225, 371
TasI AATT 2 cut(s) 357, 453
TauI GCSGC 2 cut(s) 59, 352
TfiI GAWTC 2 cut(s) 10, 183
Tru1I TTAA 3 cut(s) 126, 423, 495
Tru9I TTAA 3 cut(s) 126, 423, 495
TscAI CASTG 1 cut(s) 143
TspDTI ATGAA 1 cut(s) 45
TspRI CASTG 1 cut(s) 143
Van91I CCANNNNNTGG 2 cut(s) 226, 471
VpaK11BI GGWCC 1 cut(s) 368
XceI RCATGY 1 cut(s) 303
XmiI GTMKAC 1 cut(s) 89
XmnI GAANNNNTTC 2 cut(s) 36, 483
XspI CTAG 3 cut(s) 333, 395, 416
Zsp2I ATGCAT 1 cut(s) 305
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.