FvH4_5g37875

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0000278
Physical Location & Seq
Forward (+)
27933617 .. 27934105
489 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g37875.t1

Sequence Viewer

Length: 489 bp
ATGGTTGACGGTGTTGTTGACGAAGATAAAAAGAAAGGGACCGAGTTGCCTTTAGGTTCGGGTTCGGGTTCGGGTTCTTCACATGCTAAGCCATCAATTGGCAATGCCAAATTTGAAGTTGAGAAGTTAGATGGAGCAAATAATTTTGGCATGTGGCAGTGTGAGATGATGGATGTCTTGTGTCAACAAGAATTGGTTATAGGTCTTGAAGACAAACCAGCAGATATGAGTGAGGCGCAGTGGAAGCAGATTAATAAGTGGGCTTGTGGTTCTATCAGATTATGTGTTGCAAAGGATGTGAAGTTCTTTATTATGAGGGAGACTTCGGCAAAGGAGTTGTGGAAGAAACTGGAAGATCAATACATGATAAAGAGTGCTGAAAACCGATTTCACCTGAAGAGGAGGCTTTTCCAATTTGACTACAGACAAGGTATTTCTATGTCTGAACACATCACCAATTTCAATAAGATACTTGCAAATTTTGGTTAA
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

163

Amino Acids

18.43

Weight (kDa)

6.83

Isoelectric Point (pI)

33.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 73 - 158 9.9e-14 gag-polypeptide of LTR copia-type
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: 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)
AccB7I CCANNNNNTGG 1 cut(s) 98
AcsI RAATTY 2 cut(s) 110, 478
AcuI CTGAAG 1 cut(s) 416
AfiI CCNNNNNNNGG 1 cut(s) 98
AgsI TTSAA 3 cut(s) 116, 209, 463
AloI GAACNNNNNNTCC 2 cut(s) 287, 319
Alw26I GTCTC 1 cut(s) 314
ApoI RAATTY 2 cut(s) 110, 478
AseI ATTAAT 1 cut(s) 252
AspLEI GCGC 1 cut(s) 238
AspS9I GGNCC 1 cut(s) 39
AsuHPI GGTGA 2 cut(s) 383, 445
AvaII GGWCC 1 cut(s) 39
BbsI GAAGAC 1 cut(s) 216
BccI CCATC 3 cut(s) 100, 125, 163
BcoDI GTCTC 1 cut(s) 314
BfmI CTRYAG 1 cut(s) 421
BlpI GCTNAGC 1 cut(s) 87
Bme18I GGWCC 1 cut(s) 39
BmgT120I GGNCC 1 cut(s) 39
BmiI GGNNCC 1 cut(s) 40
BpiI GAAGAC 1 cut(s) 216
Bpu1102I GCTNAGC 1 cut(s) 87
Bsc4I CCNNNNNNNGG 1 cut(s) 98
Bse1I ACTGG 1 cut(s) 354
Bse3DI GCAATG 1 cut(s) 109
BseGI GGATG 2 cut(s) 178, 301
BseLI CCNNNNNNNGG 1 cut(s) 98
BseMI GCAATG 1 cut(s) 109
BseNI ACTGG 1 cut(s) 354
BseRI GAGGAG 1 cut(s) 415
BslFI GGGAC 1 cut(s) 52
BslI CCNNNNNNNGG 1 cut(s) 98
BsmAI GTCTC 1 cut(s) 314
BsmFI GGGAC 1 cut(s) 52
Bsp143I GATC 1 cut(s) 355
Bsp1720I GCTNAGC 1 cut(s) 87
BspLI GGNNCC 1 cut(s) 40
BsrDI GCAATG 1 cut(s) 109
BsrI ACTGG 1 cut(s) 354
BssMI GATC 1 cut(s) 355
Bst4CI ACNGT 1 cut(s) 11
Bst6I CTCTTC 1 cut(s) 392
BstDEI CTNAG 1 cut(s) 87
BstF5I GGATG 2 cut(s) 178, 301
BstHHI GCGC 1 cut(s) 238
BstKTI GATC 1 cut(s) 358
BstMAI GTCTC 1 cut(s) 314
BstMBI GATC 1 cut(s) 355
BstMWI GCNNNNNNNGC 1 cut(s) 244
BstNSI RCATGY 2 cut(s) 86, 154
BstSFI CTRYAG 1 cut(s) 421
BstV2I GAAGAC 1 cut(s) 216
BtsCI GGATG 2 cut(s) 178, 301
BtsI GCAGTG 2 cut(s) 164, 245
BtsIMutI CAGTG 2 cut(s) 164, 245
CfoI GCGC 1 cut(s) 238
Cfr13I GGNCC 1 cut(s) 39
CviAII CATG 3 cut(s) 83, 151, 364
CviJI RGCY 3 cut(s) 91, 263, 406
CviKI_1 RGCY 3 cut(s) 91, 263, 406
DdeI CTNAG 1 cut(s) 87
DpnI GATC 1 cut(s) 357
DpnII GATC 1 cut(s) 355
Eam1104I CTCTTC 1 cut(s) 392
EarI CTCTTC 1 cut(s) 392
Eco47I GGWCC 1 cut(s) 39
Eco57I CTGAAG 1 cut(s) 416
FaeI CATG 3 cut(s) 86, 154, 367
FaiI YATR 8 cut(s) 84, 152, 200, 227, 283, 314, 365, 440
FaqI GGGAC 1 cut(s) 52
FatI CATG 3 cut(s) 82, 150, 363
FokI GGATG 2 cut(s) 185, 308
GlaI GCGC 1 cut(s) 237
HhaI GCGC 1 cut(s) 238
Hin1II CATG 3 cut(s) 86, 154, 367
Hin6I GCGC 1 cut(s) 236
HinP1I GCGC 1 cut(s) 236
HincII GTYRAC 3 cut(s) 7, 19, 185
HindII GTYRAC 3 cut(s) 7, 19, 185
HphI GGTGA 2 cut(s) 383, 445
Hpy166II GTNNAC 3 cut(s) 7, 19, 185
Hpy188I TCNGA 2 cut(s) 278, 445
Hpy188III TCNNGA 1 cut(s) 206
Hpy8I GTNNAC 3 cut(s) 7, 19, 185
HpyCH4III ACNGT 1 cut(s) 11
HpyCH4V TGCA 2 cut(s) 290, 476
HpyF10VI GCNNNNNNNGC 1 cut(s) 244
HpyF3I CTNAG 1 cut(s) 87
Hsp92II CATG 3 cut(s) 86, 154, 367
HspAI GCGC 1 cut(s) 236
Kzo9I GATC 1 cut(s) 355
LmnI GCTCC 1 cut(s) 134
LpnPI CCDG 3 cut(s) 231, 335, 407
MalI GATC 1 cut(s) 357
MboI GATC 1 cut(s) 355
MboII GAAGA 6 cut(s) 35, 69, 221, 355, 365, 409
MfeI CAATTG 1 cut(s) 96
MluCI AATT 7 cut(s) 96, 110, 142, 191, 413, 457, 478
MnlI CCTC 4 cut(s) 226, 309, 393, 396
MseI TTAA 2 cut(s) 252, 487
MunI CAATTG 1 cut(s) 96
MwoI GCNNNNNNNGC 1 cut(s) 244
NdeII GATC 1 cut(s) 355
NlaIII CATG 3 cut(s) 86, 154, 367
NlaIV GGNNCC 1 cut(s) 40
NspI RCATGY 2 cut(s) 86, 154
PflMI CCANNNNNTGG 1 cut(s) 98
PshBI ATTAAT 1 cut(s) 252
PspN4I GGNNCC 1 cut(s) 40
PspPI GGNCC 1 cut(s) 39
SaqAI TTAA 2 cut(s) 252, 487
Sau3AI GATC 1 cut(s) 355
Sau96I GGNCC 1 cut(s) 39
SetI ASST 4 cut(s) 58, 205, 396, 433
SfcI CTRYAG 1 cut(s) 421
SinI GGWCC 1 cut(s) 39
Sse9I AATT 7 cut(s) 96, 110, 142, 191, 413, 457, 478
TaaI ACNGT 1 cut(s) 11
TaqII GACCGA 1 cut(s) 56
TasI AATT 7 cut(s) 96, 110, 142, 191, 413, 457, 478
Tru1I TTAA 2 cut(s) 252, 487
Tru9I TTAA 2 cut(s) 252, 487
TscAI CASTG 2 cut(s) 164, 245
TspRI CASTG 2 cut(s) 164, 245
Van91I CCANNNNNTGG 1 cut(s) 98
VpaK11BI GGWCC 1 cut(s) 39
VspI ATTAAT 1 cut(s) 252
XapI RAATTY 2 cut(s) 110, 478
XceI RCATGY 2 cut(s) 86, 154
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.