Prupe.2G187700_v2.0.a1

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
prunus_persica
Pp02
OG0000258
Physical Location & Seq
Forward (+)
22823237 .. 22824704
1468 bp
Loading structure...
UTR
Exon/CDS
Intron
Prupe.2G187700.1

Sequence Viewer

Length: 735 bp
ATGGACACGGAGCGACTCGGAATCGAGGGGAAGGAAATGAAGGCTCAACACCAACCCAACGATGACTATATGCTACGCTACGCAGAGCACCTCATGAAGGAAGCAAAGCGGGGGGATGGATATCAAGTTGTTACTCCCAAAGTACTTGTTGACGTTGACAATCTTCGTTTGAATGGGAAGCACTACGGTACTTGGAGATGTAGTATGATGGAACATGTCCTAGATAATCTTAGAGGTGTGATCTATGGGCCACGCCCAAGTTTTGTGGTAGAAACAGATGCAAGTGTTGAAGAAATTGCTCGATCAATGGCTGCCGAAGAGAAATGGAACGAGGATGACACCCTGTGTTTTCATACAATCTTGAACCATCTATGTGATGATCTTTTTCTTCATTACTCAAAGAGGAGGAAGGAAACAAGTGCCAAGCAACTGTGGGATGAGCTGCAATTGAGGTTTGGAGCACACGAATCTCGGGTTCAAAAGTACATGGAATTTGATTTGCTCGAGGAGGAGGAACCAATGTGGGTGCAAGCTCAAGAAATGGATTCATTGTTCTTCGCTCTGGTTAGGTGTAACAAAATGGAGATAGATGAGGAATTTCATGTGAATGCAATCATCTCCAAGCTCCCCCCATCTTGGGAGGATGTGTGCATCGAGTTGATGCGCGAGGAGCATCTGCCTGTTACAAAACTAATTCATCGCCTGATTGTTGAACAACAATCACGCATCAATTAG
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
DEK_C PC4 Retrotran_gag_2

Protein Analysis

245

Amino Acids

28.84

Weight (kDa)

5.13

Isoelectric Point (pI)

55.77

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: OG0000258)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G00980
fragaria_vesca FvH4_1g25682 FvH4_2g13961 FvH4_2g20162 FvH4_2g24753 FvH4_3g12191 FvH4_3g12632 FvH4_3g16171 FvH4_4g05871 FvH4_4g05873 FvH4_4g10121 FvH4_4g15488 FvH4_4g23911 FvH4_4g27782 FvH4_5g08912 FvH4_5g23001 FvH4_5g24552 FvH4_5g32801 FvH4_5g32802 FvH4_6g05093 FvH4_6g19722 FvH4_6g20391 FvH4_6g33792 FvH4_7g01381 FvH4_7g16761 FvH4_7g16761 FvH4_7g16761
malus_domestica MD01G1082500.v1.1 MD15G1436400.v1.1
prunus_persica Prupe.2G021400_v2.0.a1 Prupe.2G052400_v2.0.a1 Prupe.2G065000_v2.0.a1 Prupe.2G187700_v2.0.a1 Prupe.2G187800_v2.0.a1 Prupe.2G189900_v2.0.a1 Prupe.2G191300_v2.0.a1 Prupe.2G191700_v2.0.a1 Prupe.4G265600_v2.0.a1 Prupe.7G014200_v2.0.a1 Prupe.7G039000_v2.0.a1
pyrus_communis pycom01g05590 pycom01g05910 pycom02g12230 pycom02g25840 pycom03g15580 pycom04g04480 pycom05g09230 pycom05g23350 pycom05g23360 pycom07g08380 pycom09g01980 pycom09g01990 pycom11g18190 pycom11g18200 pycom11g21580 pycom13g04160 pycom15g25800 pycom16g16210 pycom16g17230 pycom16g24560 pycom16g25700 pycom17g11020
rosa_chinensis RchiOBHm_Chr1g0359981 RchiOBHm_Chr2g0151961 RchiOBHm_Chr2g0171331 RchiOBHm_Chr5g0081471 RchiOBHm_Chr6g0283031 RchiOBHm_Chr7g0197111 RchiOBHm_Chr7g0222601
rosa_laevigata RLG00000027843 RLG00000027845 RLG00000030065
rosa_multiflora Rmu_sc0000381.1_g000031 Rmu_sc0001179.1_g000035 Rmu_sc0001616.1_g000046 Rmu_sc0001851.1_g000032 Rmu_sc0002152.1_g000013 Rmu_sc0004031.1_g000015 Rmu_sc0004645.1_g000003 Rmu_sc0007393.1_g000001 Rmu_sc0008949.1_g000003 Rmu_sc0009799.1_g000011 Rmu_sc0011614.1_g000001 Rmu_sc0011699.1_g000009 Rmu_sc0019280.1_g000001 Rmu_sc0023984.1_g000001 Rmu_ssc0000050.1_g000036
rosa_roxburghii Rroxscaffold_1G00022650 Rroxscaffold_1G00033480 Rroxscaffold_3G00270250 Rroxscaffold_4G00296600 Rroxscaffold_4G00296760 Rroxscaffold_6G00409840
rosa_rugosa Rorug01G0273800 Rorug01G0273900 Rorug01G0274000
rosa_samantha Rh1AG287300 Rh1AG288100 Rh1BG253000 Rh1BG253500 Rh1BG399800 Rh1CG270400 Rh1CG271000 Rh1DG282000 Rh1DG282500 Rh4DG126500 Rh5DG194600 Rh5DG461100
rosa_wichuraiana Rw0G009130 Rw1G002590 Rw1G008490 Rw1G012210 Rw1G014290 Rw1G014490 Rw1G025510 Rw2G025840 Rw2G026170 Rw2G036510 Rw3G003050 Rw4G009270 Rw5G002350 Rw5G013930 Rw5G019500 Rw5G025890 Rw5G029960 Rw5G032360 Rw6G009890 Rw6G015670 Rw6G015860 Rw7G010030 Rw7G032600 Rw7G032770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 666
AciI CCGC 1 cut(s) 109
AcsI RAATTY 2 cut(s) 491, 596
AdeI CACNNNGTG 1 cut(s) 345
AfaI GTAC 3 cut(s) 144, 190, 485
AfiI CCNNNNNNNGG 3 cut(s) 97, 636, 637
AflIII ACRYGT 1 cut(s) 214
AgsI TTSAA 5 cut(s) 172, 290, 364, 479, 713
AloI GAACNNNNNNTCC 2 cut(s) 536, 568
AluBI AGCT 3 cut(s) 442, 533, 625
AluI AGCT 3 cut(s) 442, 533, 625
Alw21I GWGCWC 2 cut(s) 90, 463
Ama87I CYCGRG 2 cut(s) 471, 503
AoxI GGCC 1 cut(s) 248
ApeKI GCWGC 2 cut(s) 311, 442
ApoI RAATTY 2 cut(s) 491, 596
AspLEI GCGC 1 cut(s) 666
AspS9I GGNCC 1 cut(s) 248
AvaI CYCGRG 2 cut(s) 471, 503
Bbv12I GWGCWC 2 cut(s) 90, 463
BbvI GCAGC 2 cut(s) 298, 429
BccI CCATC 4 cut(s) 110, 202, 375, 640
BfaI CTAG 1 cut(s) 221
BisI GCNGC 2 cut(s) 312, 443
BlsI GCNGC 2 cut(s) 313, 444
BmcAI AGTACT 1 cut(s) 144
BmeT110I CYCGRG 2 cut(s) 471, 503
BmgT120I GGNCC 1 cut(s) 248
BmiI GGNNCC 1 cut(s) 516
BmsI GCATC 4 cut(s) 268, 651, 660, 682
BpuEI CTTGAG 1 cut(s) 519
BsaBI GATNNNNATC 1 cut(s) 120
BsaXI ACNNNNNCTCC 4 cut(s) 187, 217, 632, 662
Bsc4I CCNNNNNNNGG 3 cut(s) 97, 636, 637
Bse8I GATNNNNATC 1 cut(s) 120
BseGI GGATG 4 cut(s) 121, 340, 442, 649
BseJI GATNNNNATC 1 cut(s) 120
BseLI CCNNNNNNNGG 3 cut(s) 97, 636, 637
BseRI GAGGAG 4 cut(s) 418, 521, 524, 683
BseXI GCAGC 2 cut(s) 298, 429
Bsh1236I CGCG 1 cut(s) 666
BshFI GGCC 1 cut(s) 250
BsiHKAI GWGCWC 2 cut(s) 90, 463
BsiHKCI CYCGRG 2 cut(s) 471, 503
BslI CCNNNNNNNGG 3 cut(s) 97, 636, 637
BsmI GAATGC 1 cut(s) 613
BsnI GGCC 1 cut(s) 250
BsoBI CYCGRG 2 cut(s) 471, 503
Bsp1286I GDGCHC 2 cut(s) 90, 463
Bsp143I GATC 3 cut(s) 240, 302, 379
BspACI CCGC 1 cut(s) 109
BspANI GGCC 1 cut(s) 250
BspFNI CGCG 1 cut(s) 666
BspHI TCATGA 1 cut(s) 93
BspLI GGNNCC 1 cut(s) 516
BssMI GATC 3 cut(s) 240, 302, 379
Bst4CI ACNGT 2 cut(s) 188, 432
Bst6I CTCTTC 1 cut(s) 312
BstC8I GCNNGC 1 cut(s) 531
BstDEI CTNAG 1 cut(s) 230
BstENI CCTNNNNNAGG 1 cut(s) 95
BstF5I GGATG 4 cut(s) 121, 340, 442, 649
BstFNI CGCG 1 cut(s) 666
BstHHI GCGC 1 cut(s) 666
BstKTI GATC 3 cut(s) 243, 305, 382
BstMBI GATC 3 cut(s) 240, 302, 379
BstMWI GCNNNNNNNGC 1 cut(s) 670
BstNSI RCATGY 1 cut(s) 218
BstUI CGCG 1 cut(s) 666
BstV1I GCAGC 2 cut(s) 298, 429
BsuRI GGCC 1 cut(s) 250
BtgZI GCGATG 1 cut(s) 683
BtsCI GGATG 4 cut(s) 121, 340, 442, 649
Cac8I GCNNGC 1 cut(s) 531
CciI TCATGA 1 cut(s) 93
CfoI GCGC 1 cut(s) 666
Cfr13I GGNCC 1 cut(s) 248
Csp6I GTAC 3 cut(s) 143, 189, 484
CspCI CAANNNNNGTGG 2 cut(s) 246, 281
CviAII CATG 4 cut(s) 94, 215, 487, 602
CviJI RGCY 6 cut(s) 44, 250, 311, 442, 533, 625
CviKI_1 RGCY 6 cut(s) 44, 250, 311, 442, 533, 625
CviQI GTAC 3 cut(s) 143, 189, 484
DdeI CTNAG 1 cut(s) 230
DpnI GATC 3 cut(s) 242, 304, 381
DpnII GATC 3 cut(s) 240, 302, 379
DraIII CACNNNGTG 1 cut(s) 345
Eam1104I CTCTTC 1 cut(s) 312
EarI CTCTTC 1 cut(s) 312
Eco32I GATATC 1 cut(s) 122
Eco88I CYCGRG 2 cut(s) 471, 503
EcoNI CCTNNNNNAGG 1 cut(s) 95
EcoRV GATATC 1 cut(s) 122
FaeI CATG 4 cut(s) 97, 218, 490, 605
FatI CATG 4 cut(s) 93, 214, 486, 601
FauI CCCGC 1 cut(s) 102
Fnu4HI GCNGC 2 cut(s) 312, 443
FokI GGATG 4 cut(s) 128, 347, 449, 656
Fsp4HI GCNGC 2 cut(s) 312, 443
FspBI CTAG 1 cut(s) 221
GlaI GCGC 1 cut(s) 665
GluI GCNGC 2 cut(s) 312, 443
HaeIII GGCC 1 cut(s) 250
HhaI GCGC 1 cut(s) 666
Hin1II CATG 4 cut(s) 97, 218, 490, 605
Hin6I GCGC 1 cut(s) 664
HinP1I GCGC 1 cut(s) 664
HincII GTYRAC 2 cut(s) 151, 157
HindII GTYRAC 2 cut(s) 151, 157
HinfI GANTC 4 cut(s) 15, 21, 467, 545
Hpy166II GTNNAC 2 cut(s) 151, 157
Hpy188I TCNGA 1 cut(s) 20
Hpy188III TCNNGA 3 cut(s) 94, 361, 536
Hpy8I GTNNAC 2 cut(s) 151, 157
HpyAV CCTTC 4 cut(s) 25, 34, 91, 403
HpyCH4III ACNGT 2 cut(s) 188, 432
HpyCH4IV ACGT 1 cut(s) 153
HpyCH4V TGCA 5 cut(s) 281, 445, 529, 611, 651
HpyF10VI GCNNNNNNNGC 1 cut(s) 670
HpyF3I CTNAG 1 cut(s) 230
HpySE526I ACGT 1 cut(s) 153
Hsp92II CATG 4 cut(s) 97, 218, 490, 605
HspAI GCGC 1 cut(s) 664
Kzo9I GATC 3 cut(s) 240, 302, 379
LmnI GCTCC 4 cut(s) 10, 458, 630, 670
LpnPI CCDG 4 cut(s) 356, 548, 693, 716
Lsp1109I GCAGC 2 cut(s) 298, 429
LweI GCATC 4 cut(s) 268, 651, 660, 682
MaeI CTAG 1 cut(s) 221
MaeII ACGT 1 cut(s) 153
MaeIII GTNAC 3 cut(s) 130, 572, 682
MalI GATC 3 cut(s) 242, 304, 381
MboI GATC 3 cut(s) 240, 302, 379
MboII GAAGA 5 cut(s) 155, 302, 329, 380, 547
MfeI CAATTG 1 cut(s) 446
MhlI GDGCHC 2 cut(s) 90, 463
MluCI AATT 6 cut(s) 294, 446, 491, 596, 693, 730
MlyI GAGTC 1 cut(s) 9
MslI CAYNNNNRTG 2 cut(s) 372, 606
MunI CAATTG 1 cut(s) 446
Mva1269I GAATGC 1 cut(s) 613
MvnI CGCG 1 cut(s) 666
MwoI GCNNNNNNNGC 1 cut(s) 670
NdeII GATC 3 cut(s) 240, 302, 379
NlaIII CATG 4 cut(s) 97, 218, 490, 605
NlaIV GGNNCC 1 cut(s) 516
NspI RCATGY 1 cut(s) 218
PaeR7I CTCGAG 1 cut(s) 503
PagI TCATGA 1 cut(s) 93
PciI ACATGT 1 cut(s) 214
PctI GAATGC 1 cut(s) 613
PfeI GAWTC 3 cut(s) 21, 467, 545
PkrI GCNGC 2 cut(s) 313, 444
PleI GAGTC 1 cut(s) 9
PpsI GAGTC 1 cut(s) 9
PscI ACATGT 1 cut(s) 214
PspN4I GGNNCC 1 cut(s) 516
PspPI GGNCC 1 cut(s) 248
PspXI VCTCGAGB 1 cut(s) 503
RsaI GTAC 3 cut(s) 144, 190, 485
RsaNI GTAC 3 cut(s) 143, 189, 484
RseI CAYNNNNRTG 2 cut(s) 372, 606
SatI GCNGC 2 cut(s) 312, 443
Sau3AI GATC 3 cut(s) 240, 302, 379
Sau96I GGNCC 1 cut(s) 248
ScaI AGTACT 1 cut(s) 144
SchI GAGTC 1 cut(s) 9
SduI GDGCHC 2 cut(s) 90, 463
SetI ASST 8 cut(s) 93, 156, 238, 444, 455, 535, 572, 627
SfaNI GCATC 4 cut(s) 268, 651, 660, 682
Sfr274I CTCGAG 1 cut(s) 503
SlaI CTCGAG 1 cut(s) 503
SmiMI CAYNNNNRTG 2 cut(s) 372, 606
SmlI CTYRAG 2 cut(s) 503, 534
SmoI CTYRAG 2 cut(s) 503, 534
Sse9I AATT 6 cut(s) 294, 446, 491, 596, 693, 730
SsiI CCGC 1 cut(s) 109
SspMI CTAG 1 cut(s) 221
TaaI ACNGT 2 cut(s) 188, 432
TaiI ACGT 1 cut(s) 156
TaqI TCGA 4 cut(s) 24, 301, 504, 654
TasI AATT 6 cut(s) 294, 446, 491, 596, 693, 730
TatI WGTACW 2 cut(s) 142, 483
TfiI GAWTC 3 cut(s) 21, 467, 545
TseI GCWGC 2 cut(s) 311, 442
TspDTI ATGAA 7 cut(s) 53, 110, 341, 380, 537, 590, 686
TspGWI ACGGA 1 cut(s) 23
XagI CCTNNNNNAGG 1 cut(s) 95
XapI RAATTY 2 cut(s) 491, 596
XceI RCATGY 1 cut(s) 218
XhoI CTCGAG 1 cut(s) 503
XspI CTAG 1 cut(s) 221
ZrmI AGTACT 1 cut(s) 144
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.