pycom12555g00230

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
tig00012555
OG0000291
Physical Location & Seq
Forward (+)
116220 .. 116930
711 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom12555g00230.1

Sequence Viewer

Length: 711 bp
ATGTTGCCCAATTCTCTTATAACTTGCAACGTTCGGAGTCGACGGGAAAAGTCCGTTGAGTTGGCTATAGGGCAACAACCCTTGACCCCGAACACGGTCGCGACTGGCTACACGGGGAATAGTCCAGCCGCTTTCAAAACCGCTAAGGAGTGGCAATTAGCCCACGAACTTGCTCGAGCTCATTTGGAGAAGGCTTCAAAGAAGATGAAGAAATGGGCGGATCGTAAGCGAAGGAATGTGGAGTTCCAAACCGGCGACCAAGTCTTTGTGAAGCTTAATGCGTCTCAGCACAAGAGTACTCGTGGCTTGCACAAGAGCTTGTTGAGGAAATATGAGGGACCATTCCCTATCATCAAGAAGGTTGGCAAAGCCGCTTATGTCGTGGAACTCCCACCCCGTCTCAAGTTCCACCCGGTGTTCCATGTGAGCAACTTGAAGCCTTATCATGCAGACAATGAGGAACCAAGCCGAGGCGAGTCTCATCGAGCACCCCCTTTGATGACGGAGGCATTTGACAAAGAAGTGGAGAGCATCGAGGCCAAGCGTGTCGTGGTGCGACCAAGACAACCAAAGTATGTGGAGTACTTTGTCAAATGGAAAGGGCTACCATACTCCGAAGCAACATGGGAGAAGGAGACGTCCTTGTGGCAATATAAGGACCTGATTAATACATTCGAGAGGCAAGAGTCGACGAGGACGTCGACGGCTTAA
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
Asp_protease_2 Chromo RVP_2 RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

237

Amino Acids

27.23

Weight (kDa)

9.87

Isoelectric Point (pI)

40.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_Tf2-1 PF24626 85 - 149 1.5e-18 Tf2-1-like, SH3 domain
Chromo PF00385 174 - 227 1.3e-11 Chromo (CHRromatin Organisation MOdifier) domain
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: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 20
AasI GACNNNNNNGTC 1 cut(s) 697
AatII GACGTC 2 cut(s) 641, 701
AccI GTMKAC 3 cut(s) 40, 689, 701
AccII CGCG 1 cut(s) 101
AciI CCGC 4 cut(s) 129, 141, 218, 372
AclI AACGTT 1 cut(s) 30
AclWI GGATC 1 cut(s) 228
AcyI GRCGYC 2 cut(s) 638, 698
AdeI CACNNNGTG 1 cut(s) 415
AfaI GTAC 2 cut(s) 298, 584
AfiI CCNNNNNNNGG 2 cut(s) 94, 470
AgsI TTSAA 3 cut(s) 136, 198, 436
AluBI AGCT 3 cut(s) 179, 274, 318
AluI AGCT 3 cut(s) 179, 274, 318
Alw21I GWGCWC 2 cut(s) 181, 490
Alw26I GTCTC 4 cut(s) 288, 404, 483, 629
AlwI GGATC 1 cut(s) 228
Ama87I CYCGRG 1 cut(s) 174
AoxI GGCC 1 cut(s) 537
ArsI GACNNNNNNTTYG 2 cut(s) 248, 280
AseI ATTAAT 1 cut(s) 666
AspS9I GGNCC 2 cut(s) 338, 658
AsuC2I CCSGG 1 cut(s) 413
AvaI CYCGRG 1 cut(s) 174
AvaII GGWCC 2 cut(s) 338, 658
BanII GRGCYC 1 cut(s) 181
BauI CACGAG 1 cut(s) 300
Bbv12I GWGCWC 2 cut(s) 181, 490
BcnI CCSGG 1 cut(s) 413
BcoDI GTCTC 4 cut(s) 288, 404, 483, 629
BfmI CTRYAG 1 cut(s) 66
BisI GCNGC 2 cut(s) 129, 372
BlsI GCNGC 2 cut(s) 130, 373
BmcAI AGTACT 2 cut(s) 298, 584
Bme1390I CCNGG 1 cut(s) 413
Bme18I GGWCC 2 cut(s) 338, 658
BmeT110I CYCGRG 1 cut(s) 174
BmgT120I GGNCC 2 cut(s) 338, 658
BmiI GGNNCC 2 cut(s) 339, 462
BmrFI CCNGG 1 cut(s) 413
BmsI GCATC 1 cut(s) 540
Bpu10I CCTNAGC 1 cut(s) 144
BpuEI CTTGAG 1 cut(s) 386
BpuMI CCSGG 1 cut(s) 413
BsaHI GRCGYC 2 cut(s) 638, 698
BsaJI CCNNGG 1 cut(s) 469
Bsc4I CCNNNNNNNGG 2 cut(s) 94, 470
Bse118I RCCGGY 1 cut(s) 251
Bse1I ACTGG 1 cut(s) 109
BseDI CCNNGG 1 cut(s) 469
BseLI CCNNNNNNNGG 2 cut(s) 94, 470
BseMII CTCAG 1 cut(s) 299
BseNI ACTGG 1 cut(s) 109
Bsh1236I CGCG 1 cut(s) 101
Bsh1285I CGRYCG 1 cut(s) 99
BshFI GGCC 1 cut(s) 539
BsiEI CGRYCG 1 cut(s) 99
BsiHKAI GWGCWC 2 cut(s) 181, 490
BsiHKCI CYCGRG 1 cut(s) 174
BsiSI CCGG 2 cut(s) 252, 413
BslFI GGGAC 1 cut(s) 351
BslI CCNNNNNNNGG 2 cut(s) 94, 470
BsmAI GTCTC 4 cut(s) 288, 404, 483, 629
BsmBI CGTCTC 3 cut(s) 288, 404, 629
BsmFI GGGAC 1 cut(s) 351
BsnI GGCC 1 cut(s) 539
BsoBI CYCGRG 1 cut(s) 174
Bsp1286I GDGCHC 2 cut(s) 181, 490
Bsp143I GATC 1 cut(s) 220
Bsp68I TCGCGA 1 cut(s) 101
BspACI CCGC 4 cut(s) 129, 141, 218, 372
BspANI GGCC 1 cut(s) 539
BspCNI CTCAG 1 cut(s) 298
BspFNI CGCG 1 cut(s) 101
BspLI GGNNCC 2 cut(s) 339, 462
BspPI GGATC 1 cut(s) 228
BsrFI RCCGGY 1 cut(s) 251
BsrI ACTGG 1 cut(s) 109
BssAI RCCGGY 1 cut(s) 251
BssECI CCNNGG 1 cut(s) 469
BssMI GATC 1 cut(s) 220
BssNI GRCGYC 2 cut(s) 638, 698
BssSI CACGAG 1 cut(s) 300
Bst2BI CACGAG 1 cut(s) 300
Bst4CI ACNGT 1 cut(s) 97
BstACI GRCGYC 2 cut(s) 638, 698
BstC8I GCNNGC 1 cut(s) 308
BstDEI CTNAG 2 cut(s) 144, 285
BstFNI CGCG 1 cut(s) 101
BstKTI GATC 1 cut(s) 223
BstMAI GTCTC 4 cut(s) 288, 404, 483, 629
BstMBI GATC 1 cut(s) 220
BstMCI CGRYCG 1 cut(s) 99
BstSCI CCNGG 1 cut(s) 411
BstSFI CTRYAG 1 cut(s) 66
BstUI CGCG 1 cut(s) 101
BsuRI GGCC 1 cut(s) 539
BtuMI TCGCGA 1 cut(s) 101
Cac8I GCNNGC 1 cut(s) 308
Cfr10I RCCGGY 1 cut(s) 251
Cfr13I GGNCC 2 cut(s) 338, 658
CseI GACGC 1 cut(s) 270
Csp6I GTAC 2 cut(s) 297, 583
CspCI CAANNNNNGTGG 2 cut(s) 558, 593
CviAII CATG 3 cut(s) 422, 446, 624
CviQI GTAC 2 cut(s) 297, 583
DdeI CTNAG 2 cut(s) 144, 285
DpnI GATC 1 cut(s) 222
DpnII GATC 1 cut(s) 220
DraIII CACNNNGTG 1 cut(s) 415
DrdI GACNNNNNNGTC 1 cut(s) 697
DseDI GACNNNNNNGTC 1 cut(s) 697
EciI GGCGGA 1 cut(s) 233
Ecl136II GAGCTC 1 cut(s) 179
Eco24I GRGCYC 1 cut(s) 181
Eco47I GGWCC 2 cut(s) 338, 658
Eco53kI GAGCTC 1 cut(s) 179
Eco88I CYCGRG 1 cut(s) 174
EcoICRI GAGCTC 1 cut(s) 179
EcoO109I RGGNCCY 1 cut(s) 658
EcoT38I GRGCYC 1 cut(s) 181
Esp3I CGTCTC 3 cut(s) 288, 404, 629
FaeI CATG 3 cut(s) 425, 449, 627
FaqI GGGAC 1 cut(s) 351
FatI CATG 3 cut(s) 421, 445, 623
FblI GTMKAC 3 cut(s) 40, 689, 701
Fnu4HI GCNGC 2 cut(s) 129, 372
FriOI GRGCYC 1 cut(s) 181
Fsp4HI GCNGC 2 cut(s) 129, 372
GluI GCNGC 2 cut(s) 129, 372
HaeIII GGCC 1 cut(s) 539
HapII CCGG 2 cut(s) 252, 413
HgaI GACGC 1 cut(s) 270
Hin1I GRCGYC 2 cut(s) 638, 698
Hin1II CATG 3 cut(s) 425, 449, 627
HincII GTYRAC 3 cut(s) 41, 690, 702
HindII GTYRAC 3 cut(s) 41, 690, 702
HindIII AAGCTT 1 cut(s) 272
HinfI GANTC 3 cut(s) 37, 476, 686
HpaII CCGG 2 cut(s) 252, 413
Hpy166II GTNNAC 3 cut(s) 41, 690, 702
Hpy188I TCNGA 2 cut(s) 36, 616
Hpy188III TCNNGA 3 cut(s) 100, 355, 676
Hpy8I GTNNAC 3 cut(s) 41, 690, 702
Hpy99I CGWCG 4 cut(s) 45, 694, 703, 706
HpyAV CCTTC 4 cut(s) 184, 225, 352, 625
HpyCH4III ACNGT 1 cut(s) 97
HpyCH4IV ACGT 3 cut(s) 30, 638, 698
HpyCH4V TGCA 3 cut(s) 27, 310, 449
HpyF3I CTNAG 2 cut(s) 144, 285
HpySE526I ACGT 3 cut(s) 30, 638, 698
Hsp92I GRCGYC 2 cut(s) 638, 698
Hsp92II CATG 3 cut(s) 425, 449, 627
Kzo9I GATC 1 cut(s) 220
LpnPI CCDG 5 cut(s) 90, 138, 265, 426, 674
LweI GCATC 1 cut(s) 540
MaeII ACGT 3 cut(s) 30, 638, 698
MalI GATC 1 cut(s) 222
MboI GATC 1 cut(s) 220
MboII GAAGA 2 cut(s) 214, 220
MhlI GDGCHC 2 cut(s) 181, 490
MluCI AATT 2 cut(s) 10, 155
MlyI GAGTC 3 cut(s) 46, 485, 695
MnlI CCTC 8 cut(s) 318, 328, 451, 464, 499, 529, 672, 687
MseI TTAA 3 cut(s) 276, 666, 709
MspI CCGG 2 cut(s) 252, 413
MspR9I CCNGG 1 cut(s) 413
MvnI CGCG 1 cut(s) 101
NciI CCSGG 1 cut(s) 413
NdeII GATC 1 cut(s) 220
NlaIII CATG 3 cut(s) 425, 449, 627
NlaIV GGNNCC 2 cut(s) 339, 462
NmeAIII GCCGAG 1 cut(s) 494
NruI TCGCGA 1 cut(s) 101
PaeR7I CTCGAG 1 cut(s) 174
PcsI WCGNNNNNNNCGW 2 cut(s) 695, 698
PflFI GACNNNGTC 1 cut(s) 260
PkrI GCNGC 2 cut(s) 130, 373
PleI GAGTC 3 cut(s) 45, 484, 694
PpsI GAGTC 3 cut(s) 45, 484, 694
PpuMI RGGWCCY 1 cut(s) 658
PshBI ATTAAT 1 cut(s) 666
PsiI TTATAA 1 cut(s) 20
Psp124BI GAGCTC 1 cut(s) 181
Psp1406I AACGTT 1 cut(s) 30
Psp5II RGGWCCY 1 cut(s) 658
PspN4I GGNNCC 2 cut(s) 339, 462
PspPI GGNCC 2 cut(s) 338, 658
PspPPI RGGWCCY 1 cut(s) 658
PspXI VCTCGAGB 1 cut(s) 174
PsyI GACNNNGTC 1 cut(s) 260
RruI TCGCGA 1 cut(s) 101
RsaI GTAC 2 cut(s) 298, 584
RsaNI GTAC 2 cut(s) 297, 583
SacI GAGCTC 1 cut(s) 181
SalI GTCGAC 3 cut(s) 39, 688, 700
SaqAI TTAA 3 cut(s) 276, 666, 709
SatI GCNGC 2 cut(s) 129, 372
Sau3AI GATC 1 cut(s) 220
Sau96I GGNCC 2 cut(s) 338, 658
ScaI AGTACT 2 cut(s) 298, 584
SchI GAGTC 3 cut(s) 46, 485, 695
ScrFI CCNGG 1 cut(s) 413
SduI GDGCHC 2 cut(s) 181, 490
SetI ASST 8 cut(s) 33, 181, 276, 320, 363, 641, 663, 701
SfaNI GCATC 1 cut(s) 540
SfcI CTRYAG 1 cut(s) 66
Sfr274I CTCGAG 1 cut(s) 174
SgrDI CGTCGACG 1 cut(s) 700
SinI GGWCC 2 cut(s) 338, 658
SlaI CTCGAG 1 cut(s) 174
SmlI CTYRAG 2 cut(s) 174, 401
SmoI CTYRAG 2 cut(s) 174, 401
Sse9I AATT 2 cut(s) 10, 155
SsiI CCGC 4 cut(s) 129, 141, 218, 372
SstI GAGCTC 1 cut(s) 181
StyD4I CCNGG 1 cut(s) 411
TaaI ACNGT 1 cut(s) 97
TaiI ACGT 3 cut(s) 33, 641, 701
TaqI TCGA 7 cut(s) 40, 175, 484, 534, 675, 689, 701
TasI AATT 2 cut(s) 10, 155
TatI WGTACW 2 cut(s) 296, 582
TauI GCSGC 2 cut(s) 131, 374
Tru1I TTAA 3 cut(s) 276, 666, 709
Tru9I TTAA 3 cut(s) 276, 666, 709
TspDTI ATGAA 1 cut(s) 221
TspGWI ACGGA 2 cut(s) 43, 518
Tth111I GACNNNGTC 1 cut(s) 260
VpaK11BI GGWCC 2 cut(s) 338, 658
VspI ATTAAT 1 cut(s) 666
XcmI CCANNNNNNNNNTGG 1 cut(s) 547
XhoI CTCGAG 1 cut(s) 174
XmiI GTMKAC 3 cut(s) 40, 689, 701
ZraI GACGTC 2 cut(s) 639, 699
ZrmI AGTACT 2 cut(s) 298, 584
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.