FvH4_7g22584

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
OG0000278
Physical Location & Seq
Reverse (-)
17781527 .. 17781910
384 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_7g22584.t1

Sequence Viewer

Length: 384 bp
ATGGCGGAGCCGTCGTCATCGTCAGCAACAATGGTGAAGTTGACATCATCAAATTACTTCATTTGGAAGCCCAAAATGGAAGACAACCTTTACTGCAAGGATATGTACGAGGCTCTTCAAAATGGTGGAGAGAAGCCAACAGGCAAGTCCGACATAGAATGGAGCATCCTGAACAAAAAAGCTGTTGCAGGAATTCGTCAATGGGTTGATGAAAGTGTTTTTCATCATGTTGCACAAGAAACTAATGCCTACTCGATGTGGACCAAGTTGGAGTCCATGTACGAGCGAAAGATAGCACAAAACAAAGCCTCGTTCATTCGGCAGTTGGTGAACACGAAGTACAGGGATGGTCGAAGTGTTTCGGAACACTTGAGTGACTTTTAA
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

128

Amino Acids

14.67

Weight (kDa)

7.82

Isoelectric Point (pI)

35.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 30 - 127 1.7e-17 gag-polypeptide of LTR copia-type
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: OG0000278)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G29785
fragaria_vesca FvH4_1g10046 FvH4_1g17351 FvH4_1g18441 FvH4_1g24222 FvH4_2g00141 FvH4_2g05931 FvH4_2g06671 FvH4_2g14030 FvH4_2g15291 FvH4_2g22611 FvH4_2g22612 FvH4_2g26380 FvH4_2g39202 FvH4_2g39202 FvH4_3g06691 FvH4_3g08580 FvH4_3g20502 FvH4_3g20503 FvH4_3g22421 FvH4_3g42580 FvH4_4g02061 FvH4_4g06794 FvH4_4g08661 FvH4_4g11771 FvH4_4g14601 FvH4_4g14721 FvH4_4g20921 FvH4_4g33601 FvH4_4g33602 FvH4_5g07492 FvH4_5g20321 FvH4_5g21591 FvH4_5g30343 FvH4_5g37875 FvH4_6g04372 FvH4_6g04373 FvH4_6g04373 FvH4_6g21377 FvH4_6g23760 FvH4_6g29471 FvH4_6g43142 FvH4_7g14351 FvH4_7g14352 FvH4_7g22582 FvH4_7g22583 FvH4_7g22584
malus_domestica MD00G1179400.v1.1 MD01G1170500.v1.1 MD03G1286700.v1.1 MD04G1054600.v1.1 MD04G1071700.v1.1 MD04G1193900.v1.1 MD08G1054300.v1.1 MD08G1217500.v1.1 MD09G1034600.v1.1 MD09G1098100.v1.1 MD10G1018300.v1.1 MD10G1220000.v1.1 MD10G1250300.v1.1 MD12G1014400.v1.1 MD15G1021000.v1.1 MD16G1112200.v1.1
prunus_persica Prupe.1G188900_v2.0.a1 Prupe.1G258000_v2.0.a1 Prupe.4G233400_v2.0.a1
pyrus_communis pycom01g10100 pycom02g01340 pycom03g19700 pycom05g01320 pycom07g16000 pycom07g16520 pycom11g26500 pycom13g09380 pycom13g13960 pycom14g08180 pycom14g16810 pycom16g09590
rosa_chinensis RchiOBHm_Chr1g0319891 RchiOBHm_Chr1g0333711 RchiOBHm_Chr2g0115331 RchiOBHm_Chr2g0143411 RchiOBHm_Chr2g0167631 RchiOBHm_Chr3g0448581 RchiOBHm_Chr3g0494991 RchiOBHm_Chr4g0442471 RchiOBHm_Chr6g0262311 RchiOBHm_Chr6g0301831 RchiOBHm_Chr6g0301841 RchiOBHm_Chr7g0183451
rosa_roxburghii Rroxscaffold_1G00039280 Rroxscaffold_1G00047670 Rroxscaffold_1G00066330 Rroxscaffold_2G00107510 Rroxscaffold_3G00255410 Rroxscaffold_4G00301460 Rroxscaffold_5G00352730 Rroxscaffold_7G00166350 Rroxscaffold_7G00166360 Rroxscaffold_7G00203820
rosa_rugosa Rorug03G0240500 Rorug05G0191700 Rorug06G0310200
rosa_samantha Rh2BG287000 Rh4CG073500 Rh4CG176200 Rh4CG191400 Rh5BG356100 Rh5BG434100 Rh6AG110600 Rh6AG421900 Rh6AG422000 Rh6AG422100 Rh6BG428600 Rh6BG428700 Rh6BG428800 Rh6CG435200 Rh6CG435300 Rh6CG435400 Rh6DG422000 Rh6DG422100 Rh6DG422200 Rh7BG190500 Rh7CG172800 Rh7CG225200
rosa_wichuraiana Rw2G044060 Rw6G036540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 5
AcsI RAATTY 1 cut(s) 192
AfaI GTAC 3 cut(s) 107, 281, 341
AgsI TTSAA 1 cut(s) 119
AleI CACNNNNGTG 1 cut(s) 372
AluBI AGCT 1 cut(s) 182
AluI AGCT 1 cut(s) 182
ApoI RAATTY 1 cut(s) 192
Asp700I GAANNNNTTC 1 cut(s) 358
AspS9I GGNCC 1 cut(s) 261
AsuHPI GGTGA 2 cut(s) 46, 340
AvaII GGWCC 1 cut(s) 261
BbsI GAAGAC 1 cut(s) 87
BccI CCATC 1 cut(s) 341
Bme18I GGWCC 1 cut(s) 261
BmgT120I GGNCC 1 cut(s) 261
BmiI GGNNCC 1 cut(s) 9
BmsI GCATC 1 cut(s) 174
BpiI GAAGAC 1 cut(s) 87
BsaXI ACNNNNNCTCC 3 cut(s) 29, 263, 293
BseGI GGATG 2 cut(s) 165, 352
BspACI CCGC 1 cut(s) 5
BspLI GGNNCC 1 cut(s) 9
BspQI GCTCTTC 1 cut(s) 120
Bst6I CTCTTC 1 cut(s) 120
BstF5I GGATG 2 cut(s) 165, 352
BstV2I GAAGAC 1 cut(s) 87
BtsCI GGATG 2 cut(s) 165, 352
Cfr13I GGNCC 1 cut(s) 261
Csp6I GTAC 3 cut(s) 106, 280, 340
CviAII CATG 2 cut(s) 227, 277
CviJI RGCY 6 cut(s) 10, 70, 113, 136, 182, 308
CviKI_1 RGCY 6 cut(s) 10, 70, 113, 136, 182, 308
CviQI GTAC 3 cut(s) 106, 280, 340
Eam1104I CTCTTC 1 cut(s) 120
EarI CTCTTC 1 cut(s) 120
EciI GGCGGA 1 cut(s) 20
Eco47I GGWCC 1 cut(s) 261
EcoRI GAATTC 1 cut(s) 192
FaeI CATG 2 cut(s) 230, 280
FaiI YATR 4 cut(s) 104, 155, 228, 278
FalI AAGNNNNNCTT 2 cut(s) 72, 104
FatI CATG 2 cut(s) 226, 276
FokI GGATG 2 cut(s) 152, 359
Hin1II CATG 2 cut(s) 230, 280
HincII GTYRAC 1 cut(s) 42
HindII GTYRAC 1 cut(s) 42
HinfI GANTC 1 cut(s) 272
HphI GGTGA 2 cut(s) 46, 340
Hpy166II GTNNAC 3 cut(s) 42, 261, 331
Hpy188I TCNGA 2 cut(s) 151, 364
Hpy188III TCNNGA 1 cut(s) 169
Hpy8I GTNNAC 3 cut(s) 42, 261, 331
Hpy99I CGWCG 1 cut(s) 16
HpyCH4V TGCA 3 cut(s) 96, 188, 233
Hsp92II CATG 2 cut(s) 230, 280
LguI GCTCTTC 1 cut(s) 120
LmnI GCTCC 2 cut(s) 7, 162
LpnPI CCDG 4 cut(s) 126, 174, 182, 328
LweI GCATC 1 cut(s) 174
MaeIII GTNAC 1 cut(s) 374
MboII GAAGA 2 cut(s) 92, 107
MluCI AATT 2 cut(s) 52, 192
MlyI GAGTC 1 cut(s) 281
MmeI TCCRAC 2 cut(s) 174, 249
MnlI CCTC 2 cut(s) 103, 319
MroXI GAANNNNTTC 1 cut(s) 358
MseI TTAA 1 cut(s) 382
MslI CAYNNNNRTG 1 cut(s) 372
NlaIII CATG 2 cut(s) 230, 280
NlaIV GGNNCC 1 cut(s) 9
NmuCI GTSAC 1 cut(s) 374
OliI CACNNNNGTG 1 cut(s) 372
PciSI GCTCTTC 1 cut(s) 120
PdmI GAANNNNTTC 1 cut(s) 358
PleI GAGTC 1 cut(s) 280
PpsI GAGTC 1 cut(s) 280
PspN4I GGNNCC 1 cut(s) 9
PspPI GGNCC 1 cut(s) 261
PsrI GAACNNNNNNTAC 2 cut(s) 323, 355
RsaI GTAC 3 cut(s) 107, 281, 341
RsaNI GTAC 3 cut(s) 106, 280, 340
RseI CAYNNNNRTG 1 cut(s) 372
SapI GCTCTTC 1 cut(s) 120
SaqAI TTAA 1 cut(s) 382
Sau96I GGNCC 1 cut(s) 261
SchI GAGTC 1 cut(s) 281
SetI ASST 2 cut(s) 90, 184
SfaNI GCATC 1 cut(s) 174
SinI GGWCC 1 cut(s) 261
SmiMI CAYNNNNRTG 1 cut(s) 372
SmlI CTYRAG 1 cut(s) 370
SmoI CTYRAG 1 cut(s) 370
Sse9I AATT 2 cut(s) 52, 192
SsiI CCGC 1 cut(s) 5
TaqI TCGA 2 cut(s) 254, 352
TasI AATT 2 cut(s) 52, 192
TatI WGTACW 1 cut(s) 339
Tru1I TTAA 1 cut(s) 382
Tru9I TTAA 1 cut(s) 382
TseFI GTSAC 1 cut(s) 374
Tsp45I GTSAC 1 cut(s) 374
TspDTI ATGAA 4 cut(s) 49, 212, 225, 304
VpaK11BI GGWCC 1 cut(s) 261
XapI RAATTY 1 cut(s) 192
XmnI GAANNNNTTC 1 cut(s) 358
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.