FvH4_7g29024

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
OG0000154
Physical Location & Seq
Reverse (-)
21460399 .. 21461160
762 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_7g29024.t1

Sequence Viewer

Length: 762 bp
ATGGAGAAGAAGGAAAGCATCTCTGAATACTTTGCAAGAACATTGGCTATGGTCAATCAAATGAAGGCCAATGGGGAGGATATCAAGGAGCTGCAGATTGTGGAGAAGATTCTTCAAACCTTGATGGAGCGGTTTGAAGGAAAAGTCATAGCCATTAAGGAGTCCCAAGACCTTAATGCTATGACAGTGGATGATTTGATGAGTCCCTTGCAGGCCTATGAACAAAGGCTGGATGAGAAGTCGGAGATGGTGATTGAAGAAGCATTGCATACTCAATTAAGCCTCAAAAAGGAAAGAAATTGGTCGCCACGTGGTGAGTCAAGCTCAACTCAAAGGAATCAAAGTTCAAGTTACAAGAGAGGTTCACAAGGCAGATTTGGAGCAAGAAGAGGAAAAGGAAAGGGCTTCCATTGGAGTCAACGACGAGATAGATCGAATGTCCAGTGCTTTAATTGTCATGGTTATGGTCATTACAAGAATGAGTGCAGCTTGAGAAGGTCAGAGAACAAGCAGTTTCATGCCAAGTTTGCAGAAGACAATGATATCAATGAGGAGACTTTGTTGATGGCTTTTAGTGCAATGAGTAATGGACATATCACATGGTACTTGGACACAGGTTGCAACAATCATATGTTCGGCCACAAGGAGTTGTTTGTTGAGCTGAATGAGTCAATACGAGCTGAGATTACATTTGGGAATGCTGCAAGGATGCCGGTTAAAGGAAAAGGCAAGATCTTTATCAGATTTATATTATGTGCCTAG
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
DUF4219 Retrotran_gag_2 zf-CCHC

Protein Analysis

254

Amino Acids

29.21

Weight (kDa)

8.72

Isoelectric Point (pI)

53.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 1 - 81 3.2e-09 gag-polypeptide of LTR copia-type
Pol_BBD PF22936 201 - 248 2.4e-12 Pol polyprotein, beta-barrel domain
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: OG0000154)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata RLG00000026946
rosa_roxburghii Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 130
AciI CCGC 1 cut(s) 130
AcoI YGGCCR 1 cut(s) 637
AcvI CACGTG 1 cut(s) 311
AdeI CACNNNGTG 1 cut(s) 314
AfaI GTAC 1 cut(s) 605
AfiI CCNNNNNNNGG 2 cut(s) 289, 719
AgsI TTSAA 4 cut(s) 116, 137, 257, 348
AloI GAACNNNNNNTCC 2 cut(s) 328, 360
AluBI AGCT 5 cut(s) 91, 324, 489, 661, 680
AluI AGCT 5 cut(s) 91, 324, 489, 661, 680
Alw26I GTCTC 1 cut(s) 548
AoxI GGCC 3 cut(s) 66, 213, 637
ApeKI GCWGC 3 cut(s) 91, 486, 701
AsuHPI GGTGA 2 cut(s) 262, 326
BbrPI CACGTG 1 cut(s) 311
BbsI GAAGAC 1 cut(s) 540
BbvI GCAGC 3 cut(s) 78, 498, 688
BccI CCATC 3 cut(s) 118, 241, 559
BcoDI GTCTC 1 cut(s) 548
BfaI CTAG 1 cut(s) 760
BfmI CTRYAG 1 cut(s) 92
BglII AGATCT 1 cut(s) 732
BisI GCNGC 3 cut(s) 92, 487, 702
BlsI GCNGC 3 cut(s) 93, 488, 703
BmsI GCATC 2 cut(s) 27, 699
BpiI GAAGAC 1 cut(s) 540
BplI GAGNNNNNCTC 2 cut(s) 308, 340
BpuEI CTTGAG 1 cut(s) 511
BsaAI YACGTR 1 cut(s) 311
BsaBI GATNNNNATC 1 cut(s) 737
BsaXI ACNNNNNCTCC 2 cut(s) 545, 575
Bsc4I CCNNNNNNNGG 2 cut(s) 289, 719
Bse118I RCCGGY 1 cut(s) 712
Bse1I ACTGG 1 cut(s) 442
Bse3DI GCAATG 2 cut(s) 263, 585
Bse8I GATNNNNATC 1 cut(s) 737
BseGI GGATG 3 cut(s) 196, 238, 714
BseJI GATNNNNATC 1 cut(s) 737
BseLI CCNNNNNNNGG 2 cut(s) 289, 719
BseMI GCAATG 2 cut(s) 263, 585
BseMII CTCAG 1 cut(s) 672
BseNI ACTGG 1 cut(s) 442
BseRI GAGGAG 1 cut(s) 566
BseXI GCAGC 3 cut(s) 78, 498, 688
BsgI GTGCAG 1 cut(s) 505
BshFI GGCC 3 cut(s) 68, 215, 639
BsiSI CCGG 1 cut(s) 713
BslFI GGGAC 2 cut(s) 148, 189
BslI CCNNNNNNNGG 2 cut(s) 289, 719
BsmAI GTCTC 1 cut(s) 548
BsmFI GGGAC 2 cut(s) 148, 189
BsmI GAATGC 1 cut(s) 703
BsnI GGCC 3 cut(s) 68, 215, 639
Bsp143I GATC 2 cut(s) 431, 732
BspACI CCGC 1 cut(s) 130
BspANI GGCC 3 cut(s) 68, 215, 639
BspCNI CTCAG 1 cut(s) 673
BspMAI CTGCAG 1 cut(s) 96
BsrBI CCGCTC 1 cut(s) 130
BsrDI GCAATG 2 cut(s) 263, 585
BsrFI RCCGGY 1 cut(s) 712
BsrI ACTGG 1 cut(s) 442
BssAI RCCGGY 1 cut(s) 712
BssMI GATC 2 cut(s) 431, 732
Bst4CI ACNGT 1 cut(s) 187
Bst6I CTCTTC 1 cut(s) 382
BstBAI YACGTR 1 cut(s) 311
BstC8I GCNNGC 1 cut(s) 213
BstDEI CTNAG 1 cut(s) 681
BstENI CCTNNNNNAGG 1 cut(s) 287
BstF5I GGATG 3 cut(s) 196, 238, 714
BstKTI GATC 2 cut(s) 434, 735
BstMAI GTCTC 1 cut(s) 548
BstMBI GATC 2 cut(s) 431, 732
BstMWI GCNNNNNNNGC 2 cut(s) 527, 575
BstSFI CTRYAG 1 cut(s) 92
BstV1I GCAGC 3 cut(s) 78, 498, 688
BstV2I GAAGAC 1 cut(s) 540
BstX2I RGATCY 1 cut(s) 732
BstYI RGATCY 1 cut(s) 732
BsuRI GGCC 3 cut(s) 68, 215, 639
BtsCI GGATG 3 cut(s) 196, 238, 714
BtsIMutI CAGTG 2 cut(s) 192, 449
Cac8I GCNNGC 1 cut(s) 213
Cfr10I RCCGGY 1 cut(s) 712
Csp6I GTAC 1 cut(s) 604
CviAII CATG 3 cut(s) 458, 518, 600
CviQI GTAC 1 cut(s) 604
DdeI CTNAG 1 cut(s) 681
DpnI GATC 2 cut(s) 433, 734
DpnII GATC 2 cut(s) 431, 732
DraIII CACNNNGTG 1 cut(s) 314
EaeI YGGCCR 1 cut(s) 637
Eam1104I CTCTTC 1 cut(s) 382
EarI CTCTTC 1 cut(s) 382
Eco147I AGGCCT 1 cut(s) 215
Eco32I GATATC 2 cut(s) 82, 544
Eco72I CACGTG 1 cut(s) 311
EcoNI CCTNNNNNAGG 1 cut(s) 287
EcoRV GATATC 2 cut(s) 82, 544
FaeI CATG 3 cut(s) 461, 521, 603
FaqI GGGAC 2 cut(s) 148, 189
FatI CATG 3 cut(s) 457, 517, 599
FauNDI CATATG 1 cut(s) 630
Fnu4HI GCNGC 3 cut(s) 92, 487, 702
FokI GGATG 3 cut(s) 203, 245, 721
Fsp4HI GCNGC 3 cut(s) 92, 487, 702
FspBI CTAG 1 cut(s) 760
GluI GCNGC 3 cut(s) 92, 487, 702
HaeIII GGCC 3 cut(s) 68, 215, 639
HapII CCGG 1 cut(s) 713
Hin1II CATG 3 cut(s) 461, 521, 603
HincII GTYRAC 1 cut(s) 419
HindII GTYRAC 1 cut(s) 419
HinfI GANTC 7 cut(s) 109, 161, 202, 317, 337, 415, 668
HpaII CCGG 1 cut(s) 713
HphI GGTGA 2 cut(s) 262, 326
Hpy166II GTNNAC 2 cut(s) 365, 419
Hpy188I TCNGA 4 cut(s) 25, 244, 502, 743
Hpy8I GTNNAC 2 cut(s) 365, 419
Hpy99I CGWCG 1 cut(s) 426
HpyAV CCTTC 4 cut(s) 4, 58, 131, 489
HpyCH4III ACNGT 1 cut(s) 187
HpyCH4IV ACGT 1 cut(s) 310
HpyCH4V TGCA 9 cut(s) 35, 94, 211, 268, 486, 530, 578, 621, 704
HpyF10VI GCNNNNNNNGC 2 cut(s) 527, 575
HpyF3I CTNAG 1 cut(s) 681
HpySE526I ACGT 1 cut(s) 310
Hsp92II CATG 3 cut(s) 461, 521, 603
Kzo9I GATC 2 cut(s) 431, 732
LmnI GCTCC 3 cut(s) 88, 127, 380
LpnPI CCDG 5 cut(s) 197, 215, 455, 600, 726
Lsp1109I GCAGC 3 cut(s) 78, 498, 688
LweI GCATC 2 cut(s) 27, 699
MaeI CTAG 1 cut(s) 760
MaeII ACGT 1 cut(s) 310
MaeIII GTNAC 1 cut(s) 350
MalI GATC 2 cut(s) 433, 734
MbiI CCGCTC 1 cut(s) 130
MboI GATC 2 cut(s) 431, 732
MboII GAAGA 6 cut(s) 19, 104, 118, 269, 399, 545
MflI RGATCY 1 cut(s) 732
MluCI AATT 3 cut(s) 275, 298, 451
MlyI GAGTC 5 cut(s) 170, 211, 326, 424, 677
MmeI TCCRAC 1 cut(s) 222
MnlI CCTC 5 cut(s) 70, 293, 353, 383, 544
MseI TTAA 5 cut(s) 156, 174, 278, 450, 717
MslI CAYNNNNRTG 1 cut(s) 462
MspI CCGG 1 cut(s) 713
Mva1269I GAATGC 1 cut(s) 703
MwoI GCNNNNNNNGC 2 cut(s) 527, 575
NdeI CATATG 1 cut(s) 630
NdeII GATC 2 cut(s) 431, 732
NlaIII CATG 3 cut(s) 461, 521, 603
PceI AGGCCT 1 cut(s) 215
PctI GAATGC 1 cut(s) 703
PfeI GAWTC 2 cut(s) 109, 337
PkrI GCNGC 3 cut(s) 93, 488, 703
PleI GAGTC 5 cut(s) 169, 210, 325, 423, 676
PmaCI CACGTG 1 cut(s) 311
PmlI CACGTG 1 cut(s) 311
PpsI GAGTC 5 cut(s) 169, 210, 325, 423, 676
Ppu21I YACGTR 1 cut(s) 311
PspCI CACGTG 1 cut(s) 311
PstI CTGCAG 1 cut(s) 96
PsuI RGATCY 1 cut(s) 732
RsaI GTAC 1 cut(s) 605
RsaNI GTAC 1 cut(s) 604
RseI CAYNNNNRTG 1 cut(s) 462
SaqAI TTAA 5 cut(s) 156, 174, 278, 450, 717
SatI GCNGC 3 cut(s) 92, 487, 702
Sau3AI GATC 2 cut(s) 431, 732
SchI GAGTC 5 cut(s) 170, 211, 326, 424, 677
SfaNI GCATC 2 cut(s) 27, 699
SfcI CTRYAG 1 cut(s) 92
SmiMI CAYNNNNRTG 1 cut(s) 462
SmlI CTYRAG 1 cut(s) 490
SmoI CTYRAG 1 cut(s) 490
Sse9I AATT 3 cut(s) 275, 298, 451
SseBI AGGCCT 1 cut(s) 215
SsiI CCGC 1 cut(s) 130
SspMI CTAG 1 cut(s) 760
StuI AGGCCT 1 cut(s) 215
TaaI ACNGT 1 cut(s) 187
TaiI ACGT 1 cut(s) 313
TaqI TCGA 1 cut(s) 434
TasI AATT 3 cut(s) 275, 298, 451
TfiI GAWTC 2 cut(s) 109, 337
Tru1I TTAA 5 cut(s) 156, 174, 278, 450, 717
Tru9I TTAA 5 cut(s) 156, 174, 278, 450, 717
TscAI CASTG 2 cut(s) 192, 449
TseI GCWGC 3 cut(s) 91, 486, 701
TspDTI ATGAA 3 cut(s) 77, 234, 506
TspRI CASTG 2 cut(s) 192, 449
XagI CCTNNNNNAGG 1 cut(s) 287
XspI CTAG 1 cut(s) 760
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.