FvH4_5g37993

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0000118
Physical Location & Seq
Forward (+)
28047060 .. 28048207
1148 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g37993.t1

Sequence Viewer

Length: 987 bp
ATGTCTGCCTTGGTTAAGGAGAATTCAAAAGACAGTGGTCAGGATTCATTTTCAGGATCAGACTCTAGGCGTGGAGAGTCAAGACAGTCTGCTTCAAAAAGGGGCATAAAATTAGATATTGTTGATTTCAATGGTGACAACAATCCTGAGGTATTCCTTGATTGGCTACACAGCTTGGAAAGTTACTTCAAATGGCATCAGTTGGCGGAGGAGCGAAAGATCTCTTTTGCAGAAGCTAAATTGAAGGGAACAGCTAGAGTTTGGTGGGAAAAATACCAACAAACTCATCTTGCAGTTATCCGAACTTGGGAAGACATGAAGATGGCTCTGACACGTTTCTTTGTGCCACCTAACTATAAGCAACGGGTCCATCTACAGTTTGTGGAATTGGTGCAAGGAAGCTTAACTGTTGAAGAGTATACTAATAAGTTCTATAGCTTGGCTGCAAAATCTGATTTTCCATGGAATGAAGACATCATGATATCGATGTACCGCAAGGGCTTGAATCTCCATATTTCTTCGGGATTAGCAGCAAGTCGAATTTATACGATGAACGATGCTGTCCAGATTGCCTACCAAATGGAGGAAGAATATAAGAAGAGATCGTCCATGTCATTTTCAAACAAAGGGAAGATAGTAGACAAATCTTATGGAGGATTCACCCCTACATCGAGCGACTCAAATGAGAAAACTCATAGTGAGTCCTCATCTTCCAACCAATTAGTGAGTTCTTCTGCCCTTAAGAGTGCACAAAAGGCTGCTGGTTCTGCCTCTAATATGAGGACTGAAATTAAATGCTGGAAATGTAGGGGTTTTGGACACTTGGCAGTACAATGCCCAAATCGTTTAGTTGCTTTTGCAGATAAGGAGACTCCTACTGCAGCTGCCAACACTAAACAGAAGGCAAATGAAGTTGTTGAGTTGGAAGCAGAAAAAGAATCGGAGATGGAAGATGGCTCTCTTGATGCAGGGAGCAGCAAGAGATAG
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

329

Amino Acids

36.98

Weight (kDa)

8.23

Isoelectric Point (pI)

43.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 39 - 209 1.9e-17 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 76 - 169 1e-16 Retrotransposon gag protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AccI GTMKAC 2 cut(s) 419, 639
AciI CCGC 2 cut(s) 206, 493
AclWI GGATC 1 cut(s) 64
AcsI RAATTY 2 cut(s) 22, 540
AfaI GTAC 2 cut(s) 491, 831
AfiI CCNNNNNNNGG 2 cut(s) 307, 583
AflII CTTAAG 1 cut(s) 740
AflIII ACRYGT 1 cut(s) 332
AgsI TTSAA 8 cut(s) 27, 96, 130, 190, 244, 413, 505, 621
AluBI AGCT 6 cut(s) 174, 236, 254, 402, 438, 884
AluI AGCT 6 cut(s) 174, 236, 254, 402, 438, 884
Alw21I GWGCWC 1 cut(s) 751
Alw26I GTCTC 1 cut(s) 863
Alw44I GTGCAC 1 cut(s) 747
AlwI GGATC 1 cut(s) 64
ApaLI GTGCAC 1 cut(s) 747
ApeKI GCWGC 6 cut(s) 443, 530, 758, 881, 884, 975
ApoI RAATTY 2 cut(s) 22, 540
AspS9I GGNCC 1 cut(s) 367
AsuHPI GGTGA 2 cut(s) 146, 652
AvaII GGWCC 1 cut(s) 367
AxyI CCTNAGG 1 cut(s) 147
BaeGI GKGCMC 1 cut(s) 751
BbsI GAAGAC 2 cut(s) 318, 477
Bbv12I GWGCWC 1 cut(s) 751
BbvI GCAGC 5 cut(s) 430, 542, 745, 871, 893
BccI CCATC 4 cut(s) 316, 378, 940, 947
BcoDI GTCTC 1 cut(s) 863
BfaI CTAG 2 cut(s) 66, 255
BfmI CTRYAG 3 cut(s) 374, 433, 879
BfrI CTTAAG 1 cut(s) 740
BglII AGATCT 1 cut(s) 219
BisI GCNGC 6 cut(s) 444, 531, 759, 882, 885, 976
BlsI GCNGC 6 cut(s) 445, 532, 760, 883, 886, 977
Bme18I GGWCC 1 cut(s) 367
BmgT120I GGNCC 1 cut(s) 367
BmiI GGNNCC 1 cut(s) 368
BmsI GCATC 3 cut(s) 205, 547, 955
BoxI GACNNNNGTC 1 cut(s) 36
BpiI GAAGAC 2 cut(s) 318, 477
Bsa29I ATCGAT 1 cut(s) 485
BsaJI CCNNGG 2 cut(s) 9, 461
Bsc4I CCNNNNNNNGG 2 cut(s) 307, 583
Bse21I CCTNAGG 1 cut(s) 147
BseCI ATCGAT 1 cut(s) 485
BseDI CCNNGG 2 cut(s) 9, 461
BseLI CCNNNNNNNGG 2 cut(s) 307, 583
BseMII CTCAG 1 cut(s) 138
BseRI GAGGAG 1 cut(s) 224
BseSI GKGCMC 1 cut(s) 751
BseXI GCAGC 5 cut(s) 430, 542, 745, 871, 893
BshVI ATCGAT 1 cut(s) 485
BsiHKAI GWGCWC 1 cut(s) 751
BslI CCNNNNNNNGG 2 cut(s) 307, 583
BsmAI GTCTC 1 cut(s) 863
Bsp1286I GDGCHC 1 cut(s) 751
Bsp143I GATC 3 cut(s) 56, 219, 602
Bsp19I CCATGG 1 cut(s) 461
BspACI CCGC 2 cut(s) 206, 493
BspCNI CTCAG 1 cut(s) 139
BspDI ATCGAT 1 cut(s) 485
BspHI TCATGA 1 cut(s) 477
BspLI GGNNCC 1 cut(s) 368
BspMAI CTGCAG 1 cut(s) 883
BspPI GGATC 1 cut(s) 64
BspTI CTTAAG 1 cut(s) 740
BssECI CCNNGG 2 cut(s) 9, 461
BssMI GATC 3 cut(s) 56, 219, 602
BssNAI GTATAC 1 cut(s) 420
BssT1I CCWWGG 2 cut(s) 9, 461
Bst1107I GTATAC 1 cut(s) 420
Bst4CI ACNGT 4 cut(s) 35, 87, 378, 409
Bst6I CTCTTC 2 cut(s) 408, 593
BstAFI CTTAAG 1 cut(s) 740
BstDEI CTNAG 1 cut(s) 147
BstDSI CCRYGG 1 cut(s) 461
BstKTI GATC 3 cut(s) 59, 222, 605
BstMAI GTCTC 1 cut(s) 863
BstMBI GATC 3 cut(s) 56, 219, 602
BstMWI GCNNNNNNNGC 2 cut(s) 755, 767
BstPAI GACNNNNGTC 1 cut(s) 36
BstSFI CTRYAG 3 cut(s) 374, 433, 879
BstSLI GKGCMC 1 cut(s) 751
BstV1I GCAGC 5 cut(s) 430, 542, 745, 871, 893
BstV2I GAAGAC 2 cut(s) 318, 477
BstX2I RGATCY 1 cut(s) 219
BstYI RGATCY 1 cut(s) 219
BstZ17I GTATAC 1 cut(s) 420
Bsu15I ATCGAT 1 cut(s) 485
Bsu36I CCTNAGG 1 cut(s) 147
BsuTUI ATCGAT 1 cut(s) 485
BtgI CCRYGG 1 cut(s) 461
BtsIMutI CAGTG 1 cut(s) 40
CciI TCATGA 1 cut(s) 477
Cfr13I GGNCC 1 cut(s) 367
ClaI ATCGAT 1 cut(s) 485
Csp6I GTAC 2 cut(s) 490, 830
CviAII CATG 4 cut(s) 316, 462, 478, 610
CviQI GTAC 2 cut(s) 490, 830
DdeI CTNAG 1 cut(s) 147
DpnI GATC 3 cut(s) 58, 221, 604
DpnII GATC 3 cut(s) 56, 219, 602
Eam1104I CTCTTC 2 cut(s) 408, 593
EarI CTCTTC 2 cut(s) 408, 593
EciI GGCGGA 1 cut(s) 221
Eco130I CCWWGG 2 cut(s) 9, 461
Eco32I GATATC 1 cut(s) 483
Eco47I GGWCC 1 cut(s) 367
Eco81I CCTNAGG 1 cut(s) 147
EcoRI GAATTC 1 cut(s) 22
EcoRV GATATC 1 cut(s) 483
EcoT14I CCWWGG 2 cut(s) 9, 461
ErhI CCWWGG 2 cut(s) 9, 461
FaeI CATG 4 cut(s) 319, 465, 481, 613
FatI CATG 4 cut(s) 315, 461, 477, 609
FblI GTMKAC 2 cut(s) 419, 639
Fnu4HI GCNGC 6 cut(s) 444, 531, 759, 882, 885, 976
Fsp4HI GCNGC 6 cut(s) 444, 531, 759, 882, 885, 976
FspBI CTAG 2 cut(s) 66, 255
GluI GCNGC 6 cut(s) 444, 531, 759, 882, 885, 976
Hin1II CATG 4 cut(s) 319, 465, 481, 613
HindIII AAGCTT 1 cut(s) 400
HinfI GANTC 9 cut(s) 44, 62, 77, 505, 657, 677, 701, 871, 938
HphI GGTGA 2 cut(s) 146, 652
Hpy166II GTNNAC 3 cut(s) 420, 640, 749
Hpy188I TCNGA 5 cut(s) 61, 302, 330, 454, 943
Hpy188III TCNNGA 8 cut(s) 41, 54, 81, 146, 478, 522, 565, 962
Hpy8I GTNNAC 3 cut(s) 420, 640, 749
HpyAV CCTTC 2 cut(s) 238, 895
HpyCH4III ACNGT 4 cut(s) 35, 87, 378, 409
HpyCH4IV ACGT 1 cut(s) 334
HpyCH4V TGCA 8 cut(s) 230, 293, 394, 446, 749, 860, 881, 968
HpyF10VI GCNNNNNNNGC 2 cut(s) 755, 767
HpyF3I CTNAG 1 cut(s) 147
HpySE526I ACGT 1 cut(s) 334
Hsp92II CATG 4 cut(s) 319, 465, 481, 613
Kzo9I GATC 3 cut(s) 56, 219, 602
LmnI GCTCC 2 cut(s) 211, 972
LpnPI CCDG 7 cut(s) 26, 39, 159, 578, 747, 784, 954
Lsp1109I GCAGC 5 cut(s) 430, 542, 745, 871, 893
LweI GCATC 3 cut(s) 205, 547, 955
MaeI CTAG 2 cut(s) 66, 255
MaeII ACGT 1 cut(s) 334
MaeIII GTNAC 2 cut(s) 134, 182
MalI GATC 3 cut(s) 58, 221, 604
MboI GATC 3 cut(s) 56, 219, 602
MflI RGATCY 1 cut(s) 219
MhlI GDGCHC 1 cut(s) 751
MluCI AATT 7 cut(s) 22, 110, 239, 386, 540, 719, 789
MlyI GAGTC 5 cut(s) 56, 86, 671, 710, 865
MmeI TCCRAC 2 cut(s) 738, 903
MnlI CCTC 7 cut(s) 142, 202, 577, 647, 715, 774, 781
MseI TTAA 4 cut(s) 15, 404, 741, 792
MslI CAYNNNNRTG 1 cut(s) 320
MspA1I CMGCKG 1 cut(s) 884
MspCI CTTAAG 1 cut(s) 740
MwoI GCNNNNNNNGC 2 cut(s) 755, 767
NcoI CCATGG 1 cut(s) 461
NdeII GATC 3 cut(s) 56, 219, 602
NlaIII CATG 4 cut(s) 319, 465, 481, 613
NlaIV GGNNCC 1 cut(s) 368
NmuCI GTSAC 1 cut(s) 134
PagI TCATGA 1 cut(s) 477
PfeI GAWTC 4 cut(s) 44, 505, 657, 938
PkrI GCNGC 6 cut(s) 445, 532, 760, 883, 886, 977
PleI GAGTC 5 cut(s) 56, 85, 671, 709, 865
PpsI GAGTC 5 cut(s) 56, 85, 671, 709, 865
PshAI GACNNNNGTC 1 cut(s) 36
PspN4I GGNNCC 1 cut(s) 368
PspPI GGNCC 1 cut(s) 367
PstI CTGCAG 1 cut(s) 883
PsuI RGATCY 1 cut(s) 219
PvuII CAGCTG 1 cut(s) 884
RsaI GTAC 2 cut(s) 491, 831
RsaNI GTAC 2 cut(s) 490, 830
RseI CAYNNNNRTG 1 cut(s) 320
SaqAI TTAA 4 cut(s) 15, 404, 741, 792
SatI GCNGC 6 cut(s) 444, 531, 759, 882, 885, 976
Sau3AI GATC 3 cut(s) 56, 219, 602
Sau96I GGNCC 1 cut(s) 367
SchI GAGTC 5 cut(s) 56, 86, 671, 710, 865
SduI GDGCHC 1 cut(s) 751
SetI ASST 9 cut(s) 153, 176, 238, 256, 337, 352, 404, 440, 886
SfaNI GCATC 3 cut(s) 205, 547, 955
SfcI CTRYAG 3 cut(s) 374, 433, 879
SinI GGWCC 1 cut(s) 367
SmiMI CAYNNNNRTG 1 cut(s) 320
SmlI CTYRAG 1 cut(s) 740
SmoI CTYRAG 1 cut(s) 740
Sse9I AATT 7 cut(s) 22, 110, 239, 386, 540, 719, 789
SsiI CCGC 2 cut(s) 206, 493
SspMI CTAG 2 cut(s) 66, 255
StyI CCWWGG 2 cut(s) 9, 461
TaaI ACNGT 4 cut(s) 35, 87, 378, 409
TaiI ACGT 1 cut(s) 337
TaqI TCGA 3 cut(s) 485, 538, 671
TasI AATT 7 cut(s) 22, 110, 239, 386, 540, 719, 789
TatI WGTACW 1 cut(s) 829
TfiI GAWTC 4 cut(s) 44, 505, 657, 938
Tru1I TTAA 4 cut(s) 15, 404, 741, 792
Tru9I TTAA 4 cut(s) 15, 404, 741, 792
TscAI CASTG 1 cut(s) 40
TseFI GTSAC 1 cut(s) 134
TseI GCWGC 6 cut(s) 443, 530, 758, 881, 884, 975
Tsp45I GTSAC 1 cut(s) 134
TspDTI ATGAA 5 cut(s) 36, 332, 483, 566, 924
TspRI CASTG 1 cut(s) 40
Vha464I CTTAAG 1 cut(s) 740
VneI GTGCAC 1 cut(s) 747
VpaK11BI GGWCC 1 cut(s) 367
XapI RAATTY 2 cut(s) 22, 540
XmiI GTMKAC 2 cut(s) 419, 639
XspI CTAG 2 cut(s) 66, 255
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.