FvH4_4g16282

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000370
Physical Location & Seq
Reverse (-)
20282712 .. 20283335
624 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g16282.t1

Sequence Viewer

Length: 624 bp
ATGGATATGAAGGCTAGAGAATTTGTTAATCTTGTTCAAGGTGAGTTGTCCGTTGTTGGTTATCAAGCAAAATTTAAAGAACTGATGCGTTTTGCACCGAGTATGATTCTTGATGAGTACACTAAAGCAAAACGATTTGAAGATGGTCTTAAGCTGATGATTCGGCAGAAAGTGGCAATTCTGAAATTGAATAGGTATCTTGATGTGGTGGAACGAGCTCTTATAGCAGAACAAAGTGTCTTGGAGTCTATGGCAGCATTAGATTTCAAAAGCCCGAGTCCACCCCTAAGTGAGTCCCGAAGGGAAGGACAAAATGGTAGGCATCCCAAACCTGATCATCCCTCTTATAGGCAAAAAGAGAGAACAGCTCAAGATCCACGAGTTTGTTTCCAATGTGGAAAGTTAGGACATATTCAGAAGAACTGCCCAGTGTTACAGTACTGTGCTCCACAGCATCAAGCCCATGCTCCGCGACCTCAGTTCTATGCTCCATACCCACCTCAACAGAGTCACCAGAGCCACAACACGGTCAACAGCCTAGGCGTTAAGGAGGAGCACCTGCTCAAGTTAGGCCAAATGGACCAACAATCGGAAGACAAAATGCGTAACTCGCACAGGATATAG
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
RVP_2 Retrotrans_gag zf-CCHC

Protein Analysis

208

Amino Acids

23.86

Weight (kDa)

9.35

Isoelectric Point (pI)

53.93

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 567
Acc36I ACCTGC 1 cut(s) 567
AccII CGCG 1 cut(s) 472
AciI CCGC 1 cut(s) 470
AclWI GGATC 1 cut(s) 368
AcsI RAATTY 2 cut(s) 20, 71
AfaI GTAC 2 cut(s) 119, 440
AfiI CCNNNNNNNGG 3 cut(s) 348, 526, 589
AflII CTTAAG 1 cut(s) 149
AgsI TTSAA 4 cut(s) 38, 140, 190, 268
AluBI AGCT 3 cut(s) 154, 218, 368
AluI AGCT 3 cut(s) 154, 218, 368
Alw21I GWGCWC 3 cut(s) 220, 448, 558
AlwI GGATC 1 cut(s) 368
Ama87I CYCGRG 1 cut(s) 274
AoxI GGCC 1 cut(s) 571
ApeKI GCWGC 1 cut(s) 254
ApoI RAATTY 2 cut(s) 20, 71
AspA2I CCTAGG 1 cut(s) 538
AspS9I GGNCC 1 cut(s) 580
AsuHPI GGTGA 2 cut(s) 53, 503
AvaI CYCGRG 1 cut(s) 274
AvaII GGWCC 1 cut(s) 580
AvrII CCTAGG 1 cut(s) 538
BanII GRGCYC 1 cut(s) 220
BauI CACGAG 1 cut(s) 378
BbsI GAAGAC 1 cut(s) 600
Bbv12I GWGCWC 3 cut(s) 220, 448, 558
BbvI GCAGC 1 cut(s) 266
BccI CCATC 1 cut(s) 137
BclI TGATCA 1 cut(s) 334
BfaI CTAG 2 cut(s) 15, 539
BfrI CTTAAG 1 cut(s) 149
BfuAI ACCTGC 1 cut(s) 567
BisI GCNGC 1 cut(s) 255
BlnI CCTAGG 1 cut(s) 538
BlsI GCNGC 1 cut(s) 256
BmcAI AGTACT 1 cut(s) 440
Bme18I GGWCC 1 cut(s) 580
BmeT110I CYCGRG 1 cut(s) 274
BmgT120I GGNCC 1 cut(s) 580
BmrI ACTGGG 1 cut(s) 422
BmsI GCATC 3 cut(s) 75, 331, 463
BmuI ACTGGG 1 cut(s) 422
BpiI GAAGAC 1 cut(s) 600
BplI GAGNNNNNCTC 2 cut(s) 352, 384
BpuEI CTTGAG 2 cut(s) 354, 548
BsaJI CCNNGG 1 cut(s) 538
Bsc4I CCNNNNNNNGG 3 cut(s) 348, 526, 589
Bse1I ACTGG 1 cut(s) 428
BseDI CCNNGG 1 cut(s) 538
BseGI GGATG 2 cut(s) 322, 337
BseLI CCNNNNNNNGG 3 cut(s) 348, 526, 589
BseMII CTCAG 1 cut(s) 491
BseNI ACTGG 1 cut(s) 428
BseRI GAGGAG 1 cut(s) 566
BseXI GCAGC 1 cut(s) 266
Bsh1236I CGCG 1 cut(s) 472
BshFI GGCC 1 cut(s) 573
BsiHKAI GWGCWC 3 cut(s) 220, 448, 558
BsiHKCI CYCGRG 1 cut(s) 274
BslFI GGGAC 1 cut(s) 280
BslI CCNNNNNNNGG 3 cut(s) 348, 526, 589
BsmFI GGGAC 1 cut(s) 280
BsnI GGCC 1 cut(s) 573
BsoBI CYCGRG 1 cut(s) 274
Bsp1286I GDGCHC 3 cut(s) 220, 448, 558
Bsp143I GATC 2 cut(s) 334, 373
BspACI CCGC 1 cut(s) 470
BspANI GGCC 1 cut(s) 573
BspCNI CTCAG 1 cut(s) 490
BspFNI CGCG 1 cut(s) 472
BspMI ACCTGC 1 cut(s) 567
BspPI GGATC 1 cut(s) 368
BspTI CTTAAG 1 cut(s) 149
BsrI ACTGG 1 cut(s) 428
BssECI CCNNGG 1 cut(s) 538
BssMI GATC 2 cut(s) 334, 373
BssSI CACGAG 1 cut(s) 378
BssT1I CCWWGG 1 cut(s) 538
Bst2BI CACGAG 1 cut(s) 378
Bst4CI ACNGT 3 cut(s) 438, 443, 529
BstAFI CTTAAG 1 cut(s) 149
BstDEI CTNAG 2 cut(s) 287, 477
BstENI CCTNNNNNAGG 1 cut(s) 346
BstF5I GGATG 2 cut(s) 322, 337
BstFNI CGCG 1 cut(s) 472
BstKTI GATC 2 cut(s) 337, 376
BstMBI GATC 2 cut(s) 334, 373
BstMWI GCNNNNNNNGC 2 cut(s) 224, 610
BstUI CGCG 1 cut(s) 472
BstV1I GCAGC 1 cut(s) 266
BstV2I GAAGAC 1 cut(s) 600
BstX2I RGATCY 1 cut(s) 373
BstYI RGATCY 1 cut(s) 373
BsuRI GGCC 1 cut(s) 573
BtsCI GGATG 2 cut(s) 322, 337
BtsIMutI CAGTG 1 cut(s) 435
BveI ACCTGC 1 cut(s) 567
Cfr13I GGNCC 1 cut(s) 580
Csp6I GTAC 2 cut(s) 118, 439
CviAII CATG 1 cut(s) 464
CviJI RGCY 9 cut(s) 14, 154, 218, 273, 368, 461, 519, 537, 573
CviKI_1 RGCY 9 cut(s) 14, 154, 218, 273, 368, 461, 519, 537, 573
CviQI GTAC 2 cut(s) 118, 439
DdeI CTNAG 2 cut(s) 287, 477
DpnI GATC 2 cut(s) 336, 375
DpnII GATC 2 cut(s) 334, 373
DraI TTTAAA 1 cut(s) 76
Ecl136II GAGCTC 1 cut(s) 218
Eco130I CCWWGG 1 cut(s) 538
Eco24I GRGCYC 1 cut(s) 220
Eco47I GGWCC 1 cut(s) 580
Eco53kI GAGCTC 1 cut(s) 218
Eco88I CYCGRG 1 cut(s) 274
EcoICRI GAGCTC 1 cut(s) 218
EcoNI CCTNNNNNAGG 1 cut(s) 346
EcoT14I CCWWGG 1 cut(s) 538
EcoT38I GRGCYC 1 cut(s) 220
ErhI CCWWGG 1 cut(s) 538
FaeI CATG 1 cut(s) 467
FalI AAGNNNNNCTT 2 cut(s) 132, 164
FaqI GGGAC 1 cut(s) 280
FatI CATG 1 cut(s) 463
FbaI TGATCA 1 cut(s) 334
Fnu4HI GCNGC 1 cut(s) 255
FokI GGATG 2 cut(s) 309, 324
FriOI GRGCYC 1 cut(s) 220
Fsp4HI GCNGC 1 cut(s) 255
FspBI CTAG 2 cut(s) 15, 539
GluI GCNGC 1 cut(s) 255
HaeIII GGCC 1 cut(s) 573
Hin1II CATG 1 cut(s) 467
HincII GTYRAC 1 cut(s) 532
HindII GTYRAC 1 cut(s) 532
HinfI GANTC 6 cut(s) 106, 160, 245, 277, 293, 508
HphI GGTGA 2 cut(s) 53, 503
Hpy166II GTNNAC 3 cut(s) 120, 281, 532
Hpy188I TCNGA 3 cut(s) 183, 417, 592
Hpy188III TCNNGA 4 cut(s) 110, 200, 297, 371
Hpy8I GTNNAC 3 cut(s) 120, 281, 532
HpyAV CCTTC 3 cut(s) 4, 294, 299
HpyCH4III ACNGT 3 cut(s) 438, 443, 529
HpyCH4V TGCA 1 cut(s) 95
HpyF10VI GCNNNNNNNGC 2 cut(s) 224, 610
HpyF3I CTNAG 2 cut(s) 287, 477
Hsp92II CATG 1 cut(s) 467
Ksp22I TGATCA 1 cut(s) 334
Kzo9I GATC 2 cut(s) 334, 373
LmnI GCTCC 4 cut(s) 451, 472, 493, 553
LpnPI CCDG 5 cut(s) 345, 441, 527, 572, 601
Lsp1109I GCAGC 1 cut(s) 266
LweI GCATC 3 cut(s) 75, 331, 463
MaeI CTAG 2 cut(s) 15, 539
MaeIII GTNAC 3 cut(s) 432, 509, 605
MalI GATC 2 cut(s) 336, 375
MboI GATC 2 cut(s) 334, 373
MboII GAAGA 3 cut(s) 152, 430, 605
MflI RGATCY 1 cut(s) 373
MhlI GDGCHC 3 cut(s) 220, 448, 558
MluCI AATT 4 cut(s) 20, 71, 177, 185
MlyI GAGTC 4 cut(s) 254, 286, 302, 517
MnlI CCTC 4 cut(s) 352, 486, 510, 544
MseI TTAA 4 cut(s) 27, 75, 150, 546
MspCI CTTAAG 1 cut(s) 149
MvnI CGCG 1 cut(s) 472
MwoI GCNNNNNNNGC 2 cut(s) 224, 610
NdeII GATC 2 cut(s) 334, 373
NlaIII CATG 1 cut(s) 467
NmuCI GTSAC 1 cut(s) 509
PaqCI CACCTGC 1 cut(s) 567
PfeI GAWTC 2 cut(s) 106, 160
PkrI GCNGC 1 cut(s) 256
PleI GAGTC 4 cut(s) 253, 285, 301, 516
PpsI GAGTC 4 cut(s) 253, 285, 301, 516
Psp124BI GAGCTC 1 cut(s) 220
PspPI GGNCC 1 cut(s) 580
PsuI RGATCY 1 cut(s) 373
RsaI GTAC 2 cut(s) 119, 440
RsaNI GTAC 2 cut(s) 118, 439
SacI GAGCTC 1 cut(s) 220
SaqAI TTAA 4 cut(s) 27, 75, 150, 546
SatI GCNGC 1 cut(s) 255
Sau3AI GATC 2 cut(s) 334, 373
Sau96I GGNCC 1 cut(s) 580
ScaI AGTACT 1 cut(s) 440
SchI GAGTC 4 cut(s) 254, 286, 302, 517
SduI GDGCHC 3 cut(s) 220, 448, 558
SetI ASST 9 cut(s) 43, 156, 197, 220, 334, 370, 478, 502, 561
SfaNI GCATC 3 cut(s) 75, 331, 463
SinI GGWCC 1 cut(s) 580
SmlI CTYRAG 3 cut(s) 149, 369, 563
SmoI CTYRAG 3 cut(s) 149, 369, 563
Sse9I AATT 4 cut(s) 20, 71, 177, 185
SsiI CCGC 1 cut(s) 470
SspMI CTAG 2 cut(s) 15, 539
SstI GAGCTC 1 cut(s) 220
StyI CCWWGG 1 cut(s) 538
TaaI ACNGT 3 cut(s) 438, 443, 529
TasI AATT 4 cut(s) 20, 71, 177, 185
TatI WGTACW 2 cut(s) 117, 438
TfiI GAWTC 2 cut(s) 106, 160
Tru1I TTAA 4 cut(s) 27, 75, 150, 546
Tru9I TTAA 4 cut(s) 27, 75, 150, 546
TscAI CASTG 1 cut(s) 435
TseFI GTSAC 1 cut(s) 509
TseI GCWGC 1 cut(s) 254
Tsp45I GTSAC 1 cut(s) 509
TspDTI ATGAA 1 cut(s) 23
TspGWI ACGGA 1 cut(s) 40
TspRI CASTG 1 cut(s) 435
Vha464I CTTAAG 1 cut(s) 149
VpaK11BI GGWCC 1 cut(s) 580
XagI CCTNNNNNAGG 1 cut(s) 346
XapI RAATTY 2 cut(s) 20, 71
XmaJI CCTAGG 1 cut(s) 538
XspI CTAG 2 cut(s) 15, 539
ZrmI AGTACT 1 cut(s) 440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.