pycom13g08740

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr13
OG0000370
Physical Location & Seq
Forward (+)
5779913 .. 5780724
812 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom13g08740.1

Sequence Viewer

Length: 771 bp
ATGCCGCCACGTCGGGAACCCCGTCGCTCTTCCGAGCCTATTTTCCCCGATATTACTCAGTTGGGGGAAGCTTTTGCTACAGCCCTTCAGGCAGTGATGCGCCCTCCCCAGAGGACTCCTCTGGAGACTATGTACAACTTGAAGCTGGATAAGTTTAAGGGCAGTGAGGGACCCGAGAGTGCAGAGCGCTGGCTAGAACACATAGAGAAGACTTTCCGGGTGCTACATAATCAGGGGAACTTGCCTATGGAGAGGTGGGTCGAGACGACCGCTTGGTTTCTAGATACGGAGTCGGCAGCTTGGTGGGAGCAGGAGCTCCGTAGGTTGACTCCGGATCAGAGGATTGATTGGAACGTGTTTACGGGGTTGTTTAGGAGAAGATATGTACCCCCTGAGTACATTGACCGCAAGAAACAGGAGTTTTCCGAACTGAAACAGCGGAAGATGTCAGCGAATGAGTACTACCGTAAGTTTACGGACTTGTCCCGTTATCACCCTGATGTCGCTGGTAATCCGGCGGAGATGCTCCGTCTTTTCCGTCTGGGCACCAGGAAGAAGTGGCGTTCTATGGCGTCTACGGTCCACAGCGAGACTTATCGGGACTTCTATGAGATACTGTTGAGGATCGAGGATTCTGAGAATATGTCGAGCGATACGGATGAAGAGAAGGACGGCAACCAGAAGAAAGATGACAAAGGCAAAGGTCAGGCATCGCTCGGGCCCCGACAGACTCAGAACTTCAAGAGAGGTGGAGCTAGGTCGTGGAGGTAG
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 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

257

Amino Acids

30.45

Weight (kDa)

9.39

Isoelectric Point (pI)

64.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 92 - 180 7.4e-14 Retrotransposon gag 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)
AccB1I GGYRCC 1 cut(s) 545
AccI GTMKAC 1 cut(s) 575
AccIII TCCGGA 1 cut(s) 331
AciI CCGC 5 cut(s) 5, 270, 406, 439, 518
AclWI GGATC 2 cut(s) 342, 632
AcuI CTGAAG 1 cut(s) 71
AcyI GRCGYC 1 cut(s) 572
AfaI GTAC 4 cut(s) 134, 387, 398, 461
AfeI AGCGCT 1 cut(s) 188
AflIII ACRYGT 1 cut(s) 354
AgsI TTSAA 2 cut(s) 142, 742
AjiI CACGTC 1 cut(s) 11
AjnI CCWGG 1 cut(s) 548
AluBI AGCT 5 cut(s) 71, 145, 299, 316, 755
AluI AGCT 5 cut(s) 71, 145, 299, 316, 755
Alw21I GWGCWC 1 cut(s) 318
Alw26I GTCTC 3 cut(s) 119, 257, 584
AlwI GGATC 2 cut(s) 342, 632
Ama87I CYCGRG 2 cut(s) 173, 716
Aor13HI TCCGGA 1 cut(s) 331
Aor51HI AGCGCT 1 cut(s) 188
AoxI GGCC 1 cut(s) 719
ApaI GGGCCC 1 cut(s) 723
ApeKI GCWGC 1 cut(s) 296
Asp700I GAANNNNTTC 1 cut(s) 212
AspLEI GCGC 2 cut(s) 102, 189
AspS9I GGNCC 4 cut(s) 170, 580, 719, 720
AsuC2I CCSGG 1 cut(s) 218
AsuHPI GGTGA 1 cut(s) 485
AvaI CYCGRG 2 cut(s) 173, 716
AvaII GGWCC 2 cut(s) 170, 580
BaeGI GKGCMC 2 cut(s) 548, 723
BanI GGYRCC 1 cut(s) 545
BanII GRGCYC 2 cut(s) 318, 723
BbsI GAAGAC 1 cut(s) 215
Bbv12I GWGCWC 1 cut(s) 318
BbvI GCAGC 1 cut(s) 308
BceAI ACGGC 1 cut(s) 688
BciT130I CCWGG 1 cut(s) 550
BcnI CCSGG 1 cut(s) 218
BcoDI GTCTC 3 cut(s) 119, 257, 584
BfaI CTAG 3 cut(s) 194, 281, 756
BfmI CTRYAG 1 cut(s) 78
BfoI RGCGCY 1 cut(s) 190
BglI GCCNNNNNGGC 1 cut(s) 89
BisI GCNGC 2 cut(s) 5, 297
BlsI GCNGC 2 cut(s) 6, 298
BmcAI AGTACT 1 cut(s) 461
Bme1390I CCNGG 2 cut(s) 218, 550
Bme18I GGWCC 2 cut(s) 170, 580
BmeT110I CYCGRG 2 cut(s) 173, 716
BmgBI CACGTC 1 cut(s) 11
BmgT120I GGNCC 4 cut(s) 170, 580, 719, 720
BmiI GGNNCC 6 cut(s) 18, 171, 172, 547, 721, 722
BmrFI CCNGG 2 cut(s) 218, 550
BmsI GCATC 3 cut(s) 87, 513, 719
BpiI GAAGAC 1 cut(s) 215
BplI GAGNNNNNCTC 2 cut(s) 103, 135
BpmI CTGGAG 1 cut(s) 143
BpuMI CCSGG 1 cut(s) 218
BsaHI GRCGYC 1 cut(s) 572
BsaWI WCCGGW 1 cut(s) 331
BsaXI ACNNNNNCTCC 2 cut(s) 116, 146
BseAI TCCGGA 1 cut(s) 331
BseBI CCWGG 1 cut(s) 550
BseGI GGATG 1 cut(s) 664
BseMII CTCAG 4 cut(s) 71, 384, 627, 746
BseRI GAGGAG 1 cut(s) 108
BseSI GKGCMC 2 cut(s) 548, 723
BseXI GCAGC 1 cut(s) 308
BsgI GTGCAG 1 cut(s) 201
Bsh1285I CGRYCG 1 cut(s) 270
BshFI GGCC 1 cut(s) 721
BshNI GGYRCC 1 cut(s) 545
BsiEI CGRYCG 1 cut(s) 270
BsiHKAI GWGCWC 1 cut(s) 318
BsiHKCI CYCGRG 2 cut(s) 173, 716
BsiSI CCGG 3 cut(s) 217, 332, 515
BslFI GGGAC 3 cut(s) 183, 469, 614
BsmAI GTCTC 3 cut(s) 119, 257, 584
BsmBI CGTCTC 1 cut(s) 257
BsmFI GGGAC 3 cut(s) 183, 469, 614
BsnI GGCC 1 cut(s) 721
BsoBI CYCGRG 2 cut(s) 173, 716
Bsp120I GGGCCC 1 cut(s) 719
Bsp1286I GDGCHC 3 cut(s) 318, 548, 723
Bsp13I TCCGGA 1 cut(s) 331
Bsp1407I TGTACA 1 cut(s) 132
Bsp143I GATC 2 cut(s) 334, 624
BspACI CCGC 5 cut(s) 5, 270, 406, 439, 518
BspANI GGCC 1 cut(s) 721
BspCNI CTCAG 4 cut(s) 70, 385, 628, 745
BspEI TCCGGA 1 cut(s) 331
BspLI GGNNCC 6 cut(s) 18, 171, 172, 547, 721, 722
BspPI GGATC 2 cut(s) 342, 632
BspQI GCTCTTC 1 cut(s) 34
BspT107I GGYRCC 1 cut(s) 545
BsrGI TGTACA 1 cut(s) 132
BssMI GATC 2 cut(s) 334, 624
BssNI GRCGYC 1 cut(s) 572
Bst2UI CCWGG 1 cut(s) 550
Bst4CI ACNGT 3 cut(s) 467, 580, 618
Bst6I CTCTTC 2 cut(s) 34, 657
BstACI GRCGYC 1 cut(s) 572
BstAUI TGTACA 1 cut(s) 132
BstC8I GCNNGC 1 cut(s) 191
BstDEI CTNAG 4 cut(s) 57, 393, 636, 732
BstF5I GGATG 1 cut(s) 664
BstH2I RGCGCY 1 cut(s) 190
BstHHI GCGC 2 cut(s) 102, 189
BstKTI GATC 2 cut(s) 337, 627
BstMAI GTCTC 3 cut(s) 119, 257, 584
BstMBI GATC 2 cut(s) 334, 624
BstMCI CGRYCG 1 cut(s) 270
BstMWI GCNNNNNNNGC 1 cut(s) 89
BstNI CCWGG 1 cut(s) 550
BstSCI CCNGG 2 cut(s) 216, 548
BstSFI CTRYAG 1 cut(s) 78
BstSLI GKGCMC 2 cut(s) 548, 723
BstV1I GCAGC 1 cut(s) 308
BstV2I GAAGAC 1 cut(s) 215
BsuRI GGCC 1 cut(s) 721
BtgZI GCGATG 1 cut(s) 696
BtrI CACGTC 1 cut(s) 11
BtsCI GGATG 1 cut(s) 664
BtsI GCAGTG 2 cut(s) 99, 169
BtsIMutI CAGTG 2 cut(s) 99, 169
Cac8I GCNNGC 1 cut(s) 191
CfoI GCGC 2 cut(s) 102, 189
Cfr13I GGNCC 4 cut(s) 170, 580, 719, 720
CseI GACGC 1 cut(s) 561
Csp6I GTAC 4 cut(s) 133, 386, 397, 460
CspCI CAANNNNNGTGG 2 cut(s) 730, 765
CviJI RGCY 9 cut(s) 37, 71, 83, 145, 193, 299, 316, 721, 755
CviKI_1 RGCY 9 cut(s) 37, 71, 83, 145, 193, 299, 316, 721, 755
CviQI GTAC 4 cut(s) 133, 386, 397, 460
DdeI CTNAG 4 cut(s) 57, 393, 636, 732
DpnI GATC 2 cut(s) 336, 626
DpnII GATC 2 cut(s) 334, 624
Eam1104I CTCTTC 2 cut(s) 34, 657
EarI CTCTTC 2 cut(s) 34, 657
EciI GGCGGA 1 cut(s) 533
Ecl136II GAGCTC 1 cut(s) 316
Eco24I GRGCYC 2 cut(s) 318, 723
Eco47I GGWCC 2 cut(s) 170, 580
Eco47III AGCGCT 1 cut(s) 188
Eco53kI GAGCTC 1 cut(s) 316
Eco57I CTGAAG 1 cut(s) 71
Eco88I CYCGRG 2 cut(s) 173, 716
EcoICRI GAGCTC 1 cut(s) 316
EcoO109I RGGNCCY 2 cut(s) 170, 720
EcoRII CCWGG 1 cut(s) 548
EcoT38I GRGCYC 2 cut(s) 318, 723
Esp3I CGTCTC 1 cut(s) 257
FaiI YATR 8 cut(s) 131, 203, 228, 248, 384, 569, 609, 644
FaqI GGGAC 3 cut(s) 183, 469, 614
FblI GTMKAC 1 cut(s) 575
Fnu4HI GCNGC 2 cut(s) 5, 297
FokI GGATG 1 cut(s) 671
FriOI GRGCYC 2 cut(s) 318, 723
Fsp4HI GCNGC 2 cut(s) 5, 297
FspBI CTAG 3 cut(s) 194, 281, 756
GlaI GCGC 2 cut(s) 101, 188
GluI GCNGC 2 cut(s) 5, 297
GsuI CTGGAG 1 cut(s) 143
HaeII RGCGCY 1 cut(s) 190
HaeIII GGCC 1 cut(s) 721
HapII CCGG 3 cut(s) 217, 332, 515
HgaI GACGC 1 cut(s) 561
HhaI GCGC 2 cut(s) 102, 189
Hin1I GRCGYC 1 cut(s) 572
Hin6I GCGC 2 cut(s) 100, 187
HinP1I GCGC 2 cut(s) 100, 187
HincII GTYRAC 1 cut(s) 327
HindII GTYRAC 1 cut(s) 327
HindIII AAGCTT 1 cut(s) 69
HinfI GANTC 5 cut(s) 115, 290, 328, 632, 730
HpaII CCGG 3 cut(s) 217, 332, 515
HphI GGTGA 1 cut(s) 485
Hpy166II GTNNAC 5 cut(s) 327, 360, 474, 576, 583
Hpy188I TCNGA 5 cut(s) 34, 339, 427, 637, 735
Hpy188III TCNNGA 7 cut(s) 14, 122, 262, 281, 332, 599, 742
Hpy8I GTNNAC 5 cut(s) 327, 360, 474, 576, 583
Hpy99I CGWCG 2 cut(s) 15, 27
HpyAV CCTTC 2 cut(s) 95, 661
HpyCH4III ACNGT 3 cut(s) 467, 580, 618
HpyCH4IV ACGT 2 cut(s) 10, 354
HpyCH4V TGCA 1 cut(s) 182
HpyF10VI GCNNNNNNNGC 1 cut(s) 89
HpyF3I CTNAG 4 cut(s) 57, 393, 636, 732
HpySE526I ACGT 2 cut(s) 10, 354
Hsp92I GRCGYC 1 cut(s) 572
HspAI GCGC 2 cut(s) 100, 187
KflI GGGWCCC 1 cut(s) 170
Kpn2I TCCGGA 1 cut(s) 331
Kzo9I GATC 2 cut(s) 334, 624
LguI GCTCTTC 1 cut(s) 34
LmnI GCTCC 5 cut(s) 307, 313, 321, 531, 752
Lsp1109I GCAGC 1 cut(s) 308
LweI GCATC 3 cut(s) 87, 513, 719
MaeI CTAG 3 cut(s) 194, 281, 756
MaeII ACGT 2 cut(s) 10, 354
MalI GATC 2 cut(s) 336, 626
MboI GATC 2 cut(s) 334, 624
MboII GAAGA 7 cut(s) 21, 220, 390, 454, 565, 674, 694
MhlI GDGCHC 3 cut(s) 318, 548, 723
MlyI GAGTC 4 cut(s) 109, 299, 322, 724
MroI TCCGGA 1 cut(s) 331
MroXI GAANNNNTTC 1 cut(s) 212
MseI TTAA 1 cut(s) 156
MslI CAYNNNNRTG 1 cut(s) 498
MspA1I CMGCKG 1 cut(s) 439
MspI CCGG 3 cut(s) 217, 332, 515
MspR9I CCNGG 2 cut(s) 218, 550
MvaI CCWGG 1 cut(s) 550
MwoI GCNNNNNNNGC 1 cut(s) 89
NciI CCSGG 1 cut(s) 218
NdeII GATC 2 cut(s) 334, 624
NlaIV GGNNCC 6 cut(s) 18, 171, 172, 547, 721, 722
PciSI GCTCTTC 1 cut(s) 34
PcsI WCGNNNNNNNCGW 1 cut(s) 19
PdmI GAANNNNTTC 1 cut(s) 212
PfeI GAWTC 1 cut(s) 632
PkrI GCNGC 2 cut(s) 6, 298
PleI GAGTC 4 cut(s) 109, 298, 322, 724
PpsI GAGTC 4 cut(s) 109, 298, 322, 724
PpuMI RGGWCCY 1 cut(s) 170
Psp124BI GAGCTC 1 cut(s) 318
Psp5II RGGWCCY 1 cut(s) 170
Psp6I CCWGG 1 cut(s) 548
PspGI CCWGG 1 cut(s) 548
PspN4I GGNNCC 6 cut(s) 18, 171, 172, 547, 721, 722
PspOMI GGGCCC 1 cut(s) 719
PspPI GGNCC 4 cut(s) 170, 580, 719, 720
PspPPI RGGWCCY 1 cut(s) 170
RsaI GTAC 4 cut(s) 134, 387, 398, 461
RsaNI GTAC 4 cut(s) 133, 386, 397, 460
RseI CAYNNNNRTG 1 cut(s) 498
SacI GAGCTC 1 cut(s) 318
SapI GCTCTTC 1 cut(s) 34
SaqAI TTAA 1 cut(s) 156
SatI GCNGC 2 cut(s) 5, 297
Sau3AI GATC 2 cut(s) 334, 624
Sau96I GGNCC 4 cut(s) 170, 580, 719, 720
ScaI AGTACT 1 cut(s) 461
SchI GAGTC 4 cut(s) 109, 299, 322, 724
ScrFI CCNGG 2 cut(s) 218, 550
SduI GDGCHC 3 cut(s) 318, 548, 723
SfaNI GCATC 3 cut(s) 87, 513, 719
SfcI CTRYAG 1 cut(s) 78
SinI GGWCC 2 cut(s) 170, 580
SmiMI CAYNNNNRTG 1 cut(s) 498
SsiI CCGC 5 cut(s) 5, 270, 406, 439, 518
SspMI CTAG 3 cut(s) 194, 281, 756
SstI GAGCTC 1 cut(s) 318
StyD4I CCNGG 2 cut(s) 216, 548
TaaI ACNGT 3 cut(s) 467, 580, 618
TaiI ACGT 2 cut(s) 13, 357
TaqI TCGA 3 cut(s) 261, 627, 647
TatI WGTACW 3 cut(s) 132, 396, 459
TauI GCSGC 1 cut(s) 7
TfiI GAWTC 1 cut(s) 632
Tru1I TTAA 1 cut(s) 156
Tru9I TTAA 1 cut(s) 156
TscAI CASTG 2 cut(s) 99, 169
TseI GCWGC 1 cut(s) 296
TspDTI ATGAA 1 cut(s) 675
TspGWI ACGGA 6 cut(s) 302, 308, 491, 518, 527, 671
TspRI CASTG 2 cut(s) 99, 169
VpaK11BI GGWCC 2 cut(s) 170, 580
XbaI TCTAGA 1 cut(s) 280
XmiI GTMKAC 1 cut(s) 575
XmnI GAANNNNTTC 1 cut(s) 212
XspI CTAG 3 cut(s) 194, 281, 756
ZrmI AGTACT 1 cut(s) 461
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.