FvH4_1g29611

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb1
OG0000118
Physical Location & Seq
Reverse (-)
22875423 .. 22876221
799 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_1g29611.t1

Sequence Viewer

Length: 675 bp
ATGGGCGTAAAACTAGATATTATTGATTTCAATGGTGACAACAATCCTGAGATCTTCCTTGATTGGCTACATGGCTTAGAAAGTTACTTCAAATGGCACCAGTTGGTGGAGGAGCGAAAGATCTCTTTTGCAGAAGCTAAATTGAAGGGAACAACTAGAGTTTGGTGGGAAAAATATCAACAAACCCATTTTGCAGTTATTAGAACTTGGGAAGACATGAAGATAGTTTTGACACATTTCTTTGTGCCACCTAACTGCAAGCAACGGGTCCACCTACAGTTTGTGGACTTGGTGCAAGGAAGCCTATCAGTTGAAGAGTATACTAATAAGTTCTATAGCTTGATTGCCTACCAAATGGAGGAAGAATATAAGAAGAGATCGTCCGTGTCATTTTCAAACAAAGGGAAGACACTAGACAAATCTTCTGGAGGATTTACCCCTACATCTAGTGAGCCAAATGAAAAAATTCATAGTGAGTCCTCATCTTCCAACCAGTTAGTGAGTTCTTATGCTTTTAAGAGTGCACAAAAGGCTGTTGGTTCTGCCTCTAATACGAGGACTGAAATTAAATGTTGGAAATGTAGAGGCTTTGGACACTTGGCAGTACAATGCCCAAATTGTTTAGTTGCTTTTGCAGATAAGGAAACTCCTATTATAACTACCAAAGATGAATAA
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 Retrotrans_gag zf-CCHC

Protein Analysis

225

Amino Acids

25.71

Weight (kDa)

7.65

Isoelectric Point (pI)

34.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 7 - 116 5.2e-07 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 43 - 123 2.7e-11 Retrotransposon gag protein
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: OG0000118)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g01361 FvH4_1g07161 FvH4_1g07431 FvH4_1g07821 FvH4_1g08223 FvH4_1g10041 FvH4_1g12132 FvH4_1g15053 FvH4_1g18161 FvH4_1g18400 FvH4_1g18931 FvH4_1g19242 FvH4_1g19461 FvH4_1g20550 FvH4_1g21381 FvH4_1g21542 FvH4_1g22102 FvH4_1g23991 FvH4_1g24542 FvH4_1g24951 FvH4_1g24960 FvH4_1g25272 FvH4_1g25552 FvH4_1g25771 FvH4_1g28771 FvH4_1g29201 FvH4_1g29611 FvH4_2g01181 FvH4_2g02491 FvH4_2g04621 FvH4_2g04631 FvH4_2g07460 FvH4_2g08540 FvH4_2g08550 FvH4_2g09292 FvH4_2g10501 FvH4_2g12101 FvH4_2g12220 FvH4_2g12551 FvH4_2g14071 FvH4_2g14241 FvH4_2g15041 FvH4_2g15311 FvH4_2g18971 FvH4_2g19220 FvH4_2g19260 FvH4_2g19611 FvH4_2g19652 FvH4_2g20211 FvH4_2g20231 FvH4_2g21541 FvH4_2g22380 FvH4_2g27712 FvH4_2g28171 FvH4_2g29879 FvH4_2g32391 FvH4_3g02171 FvH4_3g05531 FvH4_3g09750 FvH4_3g10310 FvH4_3g10460 FvH4_3g13172 FvH4_3g15232 FvH4_3g18481 FvH4_3g18621 FvH4_3g20504 FvH4_3g20812 FvH4_3g22320 FvH4_3g22930 FvH4_3g22940 FvH4_3g23752 FvH4_3g24791 FvH4_3g26411 FvH4_3g26432 FvH4_3g27201 FvH4_3g27862 FvH4_3g28871 FvH4_3g28954 FvH4_3g29131 FvH4_3g29832 FvH4_3g29922 FvH4_3g30190 FvH4_3g32231 FvH4_3g32250 FvH4_3g33460 FvH4_3g34670 FvH4_3g36982 FvH4_3g37001 FvH4_3g38252 FvH4_3g38772 FvH4_3g40141 FvH4_3g40181 FvH4_3g42521 FvH4_4g00090 FvH4_4g00290 FvH4_4g00301 FvH4_4g00530 FvH4_4g00823 FvH4_4g02300 FvH4_4g02450 FvH4_4g03360 FvH4_4g04481 FvH4_4g04761 FvH4_4g06301 FvH4_4g06630 FvH4_4g08312 FvH4_4g08552 FvH4_4g10053 FvH4_4g11971 FvH4_4g13211 FvH4_4g13511 FvH4_4g15351 FvH4_4g16360 FvH4_4g16601 FvH4_4g18462 FvH4_4g22911 FvH4_4g23221 FvH4_4g24301 FvH4_4g24721 FvH4_4g27905 FvH4_4g28971 FvH4_4g29540 FvH4_4g30720 FvH4_4g31521 FvH4_4g33371 FvH4_4g34111 FvH4_4g35740 FvH4_5g00131 FvH4_5g02530 FvH4_5g02550 FvH4_5g02560 FvH4_5g02580 FvH4_5g03783 FvH4_5g05681 FvH4_5g05681 FvH4_5g09371 FvH4_5g09381 FvH4_5g14611 FvH4_5g15341 FvH4_5g19801 FvH4_5g20110 FvH4_5g20911 FvH4_5g22230 FvH4_5g25751 FvH4_5g26070 FvH4_5g26471 FvH4_5g27072 FvH4_5g27471 FvH4_5g27471 FvH4_5g27998 FvH4_5g28291 FvH4_5g30951 FvH4_5g31082 FvH4_5g31890 FvH4_5g32251 FvH4_5g34112 FvH4_5g37184 FvH4_5g37993 FvH4_5g38271 FvH4_6g00153 FvH4_6g00640 FvH4_6g05921 FvH4_6g08591 FvH4_6g09511 FvH4_6g10331 FvH4_6g10401 FvH4_6g14161 FvH4_6g14171 FvH4_6g18481 FvH4_6g19721 FvH4_6g19980 FvH4_6g20104 FvH4_6g20112 FvH4_6g21261 FvH4_6g21651 FvH4_6g22051 FvH4_6g23141 FvH4_6g24822 FvH4_6g25082 FvH4_6g25391 FvH4_6g25560 FvH4_6g26350 FvH4_6g27031 FvH4_6g27810 FvH4_6g27971 FvH4_6g28331 FvH4_6g29391 FvH4_6g30781 FvH4_6g32221 FvH4_6g34680 FvH4_6g36181 FvH4_6g36551 FvH4_6g37491 FvH4_6g37663 FvH4_6g39590 FvH4_6g40582 FvH4_6g43843 FvH4_6g50551 FvH4_7g00240 FvH4_7g00731 FvH4_7g01031 FvH4_7g03301 FvH4_7g08180 FvH4_7g08180 FvH4_7g10631 FvH4_7g19710 FvH4_7g23892 FvH4_7g25280 FvH4_7g25551 FvH4_7g30121 FvH4_7g31931 FvH4_7g32672 FvH4_c21g00040 FvH4_c2g00053
prunus_persica Prupe.1G448800_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0322451 RchiOBHm_Chr5g0015171
rosa_laevigata RLG00000003077 RLG00000018186 RLG00000030343
rosa_multiflora Rmu_co8096726.1_g000001
rosa_roxburghii Rroxscaffold_157G00438380 Rroxscaffold_1G00001730 Rroxscaffold_3G00236310
rosa_rugosa Rorug02G0236500
rosa_samantha Rh4BG247300 Rh6BG286200 Rh6CG287300 Rh7DG257500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 656
AccB1I GGYRCC 1 cut(s) 96
AccB7I CCANNNNNTGG 1 cut(s) 106
AccI GTMKAC 1 cut(s) 320
AcsI RAATTY 1 cut(s) 465
AfaI GTAC 1 cut(s) 606
AfiI CCNNNNNNNGG 2 cut(s) 106, 358
AgsI TTSAA 5 cut(s) 31, 91, 145, 314, 396
AluBI AGCT 2 cut(s) 137, 339
AluI AGCT 2 cut(s) 137, 339
Alw21I GWGCWC 1 cut(s) 526
Alw44I GTGCAC 1 cut(s) 522
ApaLI GTGCAC 1 cut(s) 522
ApoI RAATTY 1 cut(s) 465
Asp700I GAANNNNTTC 1 cut(s) 465
AspS9I GGNCC 1 cut(s) 268
AsuHPI GGTGA 1 cut(s) 47
AvaII GGWCC 1 cut(s) 268
BaeGI GKGCMC 1 cut(s) 526
BanI GGYRCC 1 cut(s) 96
BbsI GAAGAC 2 cut(s) 219, 413
Bbv12I GWGCWC 1 cut(s) 526
BfaI CTAG 4 cut(s) 14, 156, 413, 447
BfmI CTRYAG 2 cut(s) 275, 334
BglII AGATCT 2 cut(s) 51, 120
Bme18I GGWCC 1 cut(s) 268
BmgT120I GGNCC 1 cut(s) 268
BmiI GGNNCC 2 cut(s) 98, 269
BpiI GAAGAC 2 cut(s) 219, 413
BpmI CTGGAG 1 cut(s) 447
Bsc4I CCNNNNNNNGG 2 cut(s) 106, 358
Bse1I ACTGG 2 cut(s) 100, 493
BseLI CCNNNNNNNGG 2 cut(s) 106, 358
BseMII CTCAG 1 cut(s) 39
BseNI ACTGG 2 cut(s) 100, 493
BseRI GAGGAG 1 cut(s) 125
BseSI GKGCMC 1 cut(s) 526
BshNI GGYRCC 1 cut(s) 96
BsiHKAI GWGCWC 1 cut(s) 526
BslI CCNNNNNNNGG 2 cut(s) 106, 358
Bsp1286I GDGCHC 1 cut(s) 526
Bsp143I GATC 3 cut(s) 51, 120, 377
BspCNI CTCAG 1 cut(s) 40
BspLI GGNNCC 2 cut(s) 98, 269
BspT107I GGYRCC 1 cut(s) 96
BsrI ACTGG 2 cut(s) 100, 493
BssMI GATC 3 cut(s) 51, 120, 377
BssNAI GTATAC 1 cut(s) 321
Bst1107I GTATAC 1 cut(s) 321
Bst4CI ACNGT 1 cut(s) 279
Bst6I CTCTTC 2 cut(s) 309, 368
BstC8I GCNNGC 1 cut(s) 260
BstDEI CTNAG 2 cut(s) 48, 76
BstKTI GATC 3 cut(s) 54, 123, 380
BstMBI GATC 3 cut(s) 51, 120, 377
BstMWI GCNNNNNNNGC 1 cut(s) 530
BstSFI CTRYAG 2 cut(s) 275, 334
BstSLI GKGCMC 1 cut(s) 526
BstV2I GAAGAC 2 cut(s) 219, 413
BstX2I RGATCY 2 cut(s) 51, 120
BstYI RGATCY 2 cut(s) 51, 120
BstZ17I GTATAC 1 cut(s) 321
Cac8I GCNNGC 1 cut(s) 260
Cfr13I GGNCC 1 cut(s) 268
Csp6I GTAC 1 cut(s) 605
CviAII CATG 2 cut(s) 71, 217
CviJI RGCY 8 cut(s) 67, 75, 137, 303, 339, 454, 533, 588
CviKI_1 RGCY 8 cut(s) 67, 75, 137, 303, 339, 454, 533, 588
CviQI GTAC 1 cut(s) 605
DdeI CTNAG 2 cut(s) 48, 76
DpnI GATC 3 cut(s) 53, 122, 379
DpnII GATC 3 cut(s) 51, 120, 377
Eam1104I CTCTTC 2 cut(s) 309, 368
EarI CTCTTC 2 cut(s) 309, 368
Eco47I GGWCC 1 cut(s) 268
FaeI CATG 2 cut(s) 74, 220
FaiI YATR 8 cut(s) 72, 218, 321, 336, 369, 471, 510, 656
FatI CATG 2 cut(s) 70, 216
FblI GTMKAC 1 cut(s) 320
FspBI CTAG 4 cut(s) 14, 156, 413, 447
GsuI CTGGAG 1 cut(s) 447
Hin1II CATG 2 cut(s) 74, 220
HinfI GANTC 1 cut(s) 476
HphI GGTGA 1 cut(s) 47
Hpy166II GTNNAC 4 cut(s) 271, 286, 321, 524
Hpy188III TCNNGA 2 cut(s) 47, 426
Hpy8I GTNNAC 4 cut(s) 271, 286, 321, 524
HpyAV CCTTC 1 cut(s) 139
HpyCH4III ACNGT 1 cut(s) 279
HpyCH4V TGCA 6 cut(s) 131, 194, 258, 295, 524, 635
HpyF10VI GCNNNNNNNGC 1 cut(s) 530
HpyF3I CTNAG 2 cut(s) 48, 76
Hsp92II CATG 2 cut(s) 74, 220
Kzo9I GATC 3 cut(s) 51, 120, 377
LmnI GCTCC 1 cut(s) 112
LpnPI CCDG 4 cut(s) 60, 113, 411, 506
MaeI CTAG 4 cut(s) 14, 156, 413, 447
MaeIII GTNAC 2 cut(s) 35, 83
MalI GATC 3 cut(s) 53, 122, 379
MboI GATC 3 cut(s) 51, 120, 377
MboII GAAGA 9 cut(s) 46, 224, 232, 326, 374, 385, 414, 418, 477
MflI RGATCY 2 cut(s) 51, 120
MhlI GDGCHC 1 cut(s) 526
MluCI AATT 4 cut(s) 140, 465, 564, 616
MlyI GAGTC 1 cut(s) 485
MmeI TCCRAC 2 cut(s) 513, 554
MnlI CCTC 7 cut(s) 103, 352, 422, 490, 549, 556, 578
MroXI GAANNNNTTC 1 cut(s) 465
MseI TTAA 2 cut(s) 516, 567
MwoI GCNNNNNNNGC 1 cut(s) 530
NdeII GATC 3 cut(s) 51, 120, 377
NlaIII CATG 2 cut(s) 74, 220
NlaIV GGNNCC 2 cut(s) 98, 269
NmuCI GTSAC 1 cut(s) 35
PdmI GAANNNNTTC 1 cut(s) 465
PflMI CCANNNNNTGG 1 cut(s) 106
PleI GAGTC 1 cut(s) 484
PpsI GAGTC 1 cut(s) 484
PsiI TTATAA 1 cut(s) 656
PspN4I GGNNCC 2 cut(s) 98, 269
PspPI GGNCC 1 cut(s) 268
PsuI RGATCY 2 cut(s) 51, 120
RsaI GTAC 1 cut(s) 606
RsaNI GTAC 1 cut(s) 605
SaqAI TTAA 2 cut(s) 516, 567
Sau3AI GATC 3 cut(s) 51, 120, 377
Sau96I GGNCC 1 cut(s) 268
SchI GAGTC 1 cut(s) 485
SduI GDGCHC 1 cut(s) 526
SetI ASST 4 cut(s) 139, 253, 276, 341
SfcI CTRYAG 2 cut(s) 275, 334
SinI GGWCC 1 cut(s) 268
Sse9I AATT 4 cut(s) 140, 465, 564, 616
SspMI CTAG 4 cut(s) 14, 156, 413, 447
TaaI ACNGT 1 cut(s) 279
TasI AATT 4 cut(s) 140, 465, 564, 616
TatI WGTACW 1 cut(s) 604
Tru1I TTAA 2 cut(s) 516, 567
Tru9I TTAA 2 cut(s) 516, 567
TseFI GTSAC 1 cut(s) 35
Tsp45I GTSAC 1 cut(s) 35
TspDTI ATGAA 3 cut(s) 233, 458, 474
TspGWI ACGGA 1 cut(s) 373
Van91I CCANNNNNTGG 1 cut(s) 106
VneI GTGCAC 1 cut(s) 522
VpaK11BI GGWCC 1 cut(s) 268
XapI RAATTY 1 cut(s) 465
XmiI GTMKAC 1 cut(s) 320
XmnI GAANNNNTTC 1 cut(s) 465
XspI CTAG 4 cut(s) 14, 156, 413, 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.