pycom05g08070

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0000370
Physical Location & Seq
Reverse (-)
10820310 .. 10821457
1148 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom05g08070.1

Sequence Viewer

Length: 600 bp
ATGATATTCTGTTGTGGCATATTCTCAAGCATGAATGGCATATTGCCGCCTCGTCGGGAACCACATCGCTCAGATGAGTCTAGTTTCCCTGATCTTACTCAGTTGGGGGAAGTGATTGCTACAGCCCTTCAAACAGTGATGCGCCCTCCCCAGAGGACCCCTCTGGAGACTATGTATAACCTGAAGTTGGATAAGTTTAAAGGTAATGAGGGTCACGAAGGCGCAGAACGTTGGTTGGAACACATAGAGAAGACTTTCCGTGTGTTGCATAACCAGGGGAACCTTCCTATGGAAAGGTGGGTCGAGACAACCTCTTGGTTTCTGGAGATGGAGTCTGCAGCTTGGTGGGAGCAAGAACTTCGTAGGTTGACTCCAGCTCAGAGGACCGATTGGAATGTTTTCAAGGACGTGTTTCAGAGGAGATTTGTACCCCCTGAGTATATTGACCGTAAGAAACAGGAATTCACTGAGTTGAAACAGCGAAAGATGACGGCTAACGAGTATTATCGTAAGTTCACTGATTTGTCTCGTTACTATCCTGATGTCGCTGGTAATCCGGCGGAGATGCTTCGTCGTTTTCGCTTGGGCACTAGGAAGTGA
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

200

Amino Acids

23.87

Weight (kDa)

9.09

Isoelectric Point (pI)

56.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 105 - 196 4.4e-15 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)
AciI CCGC 2 cut(s) 47, 560
AclI AACGTT 1 cut(s) 229
AcsI RAATTY 1 cut(s) 461
AcuI CTGAAG 1 cut(s) 203
AfaI GTAC 1 cut(s) 429
AfiI CCNNNNNNNGG 2 cut(s) 187, 289
AflIII ACRYGT 1 cut(s) 408
AgsI TTSAA 3 cut(s) 131, 403, 475
AjiI CACGTC 1 cut(s) 409
AjnI CCWGG 1 cut(s) 273
AluBI AGCT 2 cut(s) 341, 377
AluI AGCT 2 cut(s) 341, 377
Alw26I GTCTC 3 cut(s) 161, 299, 531
ApeKI GCWGC 1 cut(s) 338
ApoI RAATTY 1 cut(s) 461
Asp700I GAANNNNTTC 2 cut(s) 254, 398
AspLEI GCGC 2 cut(s) 144, 224
AspS9I GGNCC 2 cut(s) 156, 384
AvaII GGWCC 2 cut(s) 156, 384
BaeGI GKGCMC 1 cut(s) 590
BbsI GAAGAC 1 cut(s) 257
BbvI GCAGC 1 cut(s) 350
BccI CCATC 1 cut(s) 322
BceAI ACGGC 1 cut(s) 507
BcgI CGANNNNNNTGC 2 cut(s) 341, 375
BciT130I CCWGG 1 cut(s) 275
BcoDI GTCTC 3 cut(s) 161, 299, 531
BfaI CTAG 2 cut(s) 81, 591
BfmI CTRYAG 2 cut(s) 120, 336
BisI GCNGC 2 cut(s) 47, 339
BlsI GCNGC 2 cut(s) 48, 340
Bme1390I CCNGG 1 cut(s) 275
Bme18I GGWCC 2 cut(s) 156, 384
BmgBI CACGTC 1 cut(s) 409
BmgT120I GGNCC 2 cut(s) 156, 384
BmiI GGNNCC 3 cut(s) 60, 158, 281
BmrFI CCNGG 1 cut(s) 275
BmsI GCATC 2 cut(s) 129, 555
BpiI GAAGAC 1 cut(s) 257
BplI GAGNNNNNCTC 4 cut(s) 145, 177, 296, 328
BpmI CTGGAG 3 cut(s) 185, 344, 357
BpuEI CTTGAG 1 cut(s) 10
BsaJI CCNNGG 1 cut(s) 274
BsaXI ACNNNNNCTCC 4 cut(s) 158, 188, 317, 347
Bsc4I CCNNNNNNNGG 2 cut(s) 187, 289
BseBI CCWGG 1 cut(s) 275
BseDI CCNNGG 1 cut(s) 274
BseLI CCNNNNNNNGG 2 cut(s) 187, 289
BseMII CTCAG 5 cut(s) 84, 113, 392, 426, 459
BseRI GAGGAG 1 cut(s) 433
BseSI GKGCMC 1 cut(s) 590
BseXI GCAGC 1 cut(s) 350
BsiSI CCGG 1 cut(s) 557
BslI CCNNNNNNNGG 2 cut(s) 187, 289
BsmAI GTCTC 3 cut(s) 161, 299, 531
Bsp1286I GDGCHC 1 cut(s) 590
Bsp143I GATC 1 cut(s) 91
BspACI CCGC 2 cut(s) 47, 560
BspCNI CTCAG 5 cut(s) 83, 112, 391, 427, 460
BspLI GGNNCC 3 cut(s) 60, 158, 281
BspMAI CTGCAG 1 cut(s) 340
BssECI CCNNGG 1 cut(s) 274
BssMI GATC 1 cut(s) 91
Bst2UI CCWGG 1 cut(s) 275
Bst4CI ACNGT 2 cut(s) 136, 449
BstDEI CTNAG 5 cut(s) 70, 99, 378, 435, 468
BstHHI GCGC 2 cut(s) 144, 224
BstKTI GATC 1 cut(s) 94
BstMAI GTCTC 3 cut(s) 161, 299, 531
BstMBI GATC 1 cut(s) 91
BstMWI GCNNNNNNNGC 1 cut(s) 36
BstNI CCWGG 1 cut(s) 275
BstSCI CCNGG 1 cut(s) 273
BstSFI CTRYAG 2 cut(s) 120, 336
BstSLI GKGCMC 1 cut(s) 590
BstV1I GCAGC 1 cut(s) 350
BstV2I GAAGAC 1 cut(s) 257
BtgZI GCGATG 1 cut(s) 50
BtrI CACGTC 1 cut(s) 409
BtsIMutI CAGTG 3 cut(s) 141, 465, 516
CfoI GCGC 2 cut(s) 144, 224
Cfr13I GGNCC 2 cut(s) 156, 384
Csp6I GTAC 1 cut(s) 428
CviAII CATG 1 cut(s) 31
CviJI RGCY 4 cut(s) 125, 341, 377, 494
CviKI_1 RGCY 4 cut(s) 125, 341, 377, 494
CviQI GTAC 1 cut(s) 428
DdeI CTNAG 5 cut(s) 70, 99, 378, 435, 468
DpnI GATC 1 cut(s) 93
DpnII GATC 1 cut(s) 91
DraI TTTAAA 1 cut(s) 199
EciI GGCGGA 1 cut(s) 575
Eco47I GGWCC 2 cut(s) 156, 384
Eco57I CTGAAG 1 cut(s) 203
EcoO109I RGGNCCY 1 cut(s) 156
EcoRI GAATTC 1 cut(s) 461
EcoRII CCWGG 1 cut(s) 273
FaeI CATG 1 cut(s) 34
FaiI YATR 9 cut(s) 20, 32, 41, 173, 177, 245, 270, 290, 441
FatI CATG 1 cut(s) 30
Fnu4HI GCNGC 2 cut(s) 47, 339
Fsp4HI GCNGC 2 cut(s) 47, 339
FspBI CTAG 2 cut(s) 81, 591
GlaI GCGC 2 cut(s) 143, 223
GluI GCNGC 2 cut(s) 47, 339
GsuI CTGGAG 3 cut(s) 185, 344, 357
HapII CCGG 1 cut(s) 557
HhaI GCGC 2 cut(s) 144, 224
Hin1II CATG 1 cut(s) 34
Hin6I GCGC 2 cut(s) 142, 222
HinP1I GCGC 2 cut(s) 142, 222
HincII GTYRAC 1 cut(s) 369
HindII GTYRAC 1 cut(s) 369
HinfI GANTC 3 cut(s) 77, 332, 370
HpaII CCGG 1 cut(s) 557
Hpy166II GTNNAC 2 cut(s) 369, 516
Hpy188I TCNGA 3 cut(s) 73, 381, 417
Hpy188III TCNNGA 6 cut(s) 56, 164, 215, 304, 323, 539
Hpy8I GTNNAC 2 cut(s) 369, 516
Hpy99I CGWCG 2 cut(s) 57, 576
HpyAV CCTTC 3 cut(s) 137, 212, 293
HpyCH4III ACNGT 2 cut(s) 136, 449
HpyCH4IV ACGT 2 cut(s) 229, 408
HpyCH4V TGCA 2 cut(s) 268, 338
HpyF10VI GCNNNNNNNGC 1 cut(s) 36
HpyF3I CTNAG 5 cut(s) 70, 99, 378, 435, 468
HpySE526I ACGT 2 cut(s) 229, 408
Hsp92II CATG 1 cut(s) 34
HspAI GCGC 2 cut(s) 142, 222
Kzo9I GATC 1 cut(s) 91
LmnI GCTCC 1 cut(s) 349
Lsp1109I GCAGC 1 cut(s) 350
LweI GCATC 2 cut(s) 129, 555
MaeI CTAG 2 cut(s) 81, 591
MaeII ACGT 2 cut(s) 229, 408
MaeIII GTNAC 2 cut(s) 212, 530
MalI GATC 1 cut(s) 93
MboI GATC 1 cut(s) 91
MboII GAAGA 1 cut(s) 262
MhlI GDGCHC 1 cut(s) 590
MluCI AATT 1 cut(s) 461
MlyI GAGTC 3 cut(s) 86, 341, 364
MmeI TCCRAC 2 cut(s) 168, 216
MnlI CCTC 8 cut(s) 60, 147, 156, 171, 202, 322, 375, 411
MroXI GAANNNNTTC 2 cut(s) 254, 398
MseI TTAA 1 cut(s) 198
MspI CCGG 1 cut(s) 557
MspR9I CCNGG 1 cut(s) 275
MvaI CCWGG 1 cut(s) 275
MwoI GCNNNNNNNGC 1 cut(s) 36
NdeII GATC 1 cut(s) 91
NlaIII CATG 1 cut(s) 34
NlaIV GGNNCC 3 cut(s) 60, 158, 281
NmuCI GTSAC 1 cut(s) 212
PdmI GAANNNNTTC 2 cut(s) 254, 398
PkrI GCNGC 2 cut(s) 48, 340
PleI GAGTC 3 cut(s) 85, 340, 364
PpsI GAGTC 3 cut(s) 85, 340, 364
PpuMI RGGWCCY 1 cut(s) 156
Psp1406I AACGTT 1 cut(s) 229
Psp5II RGGWCCY 1 cut(s) 156
Psp6I CCWGG 1 cut(s) 273
PspGI CCWGG 1 cut(s) 273
PspN4I GGNNCC 3 cut(s) 60, 158, 281
PspPI GGNCC 2 cut(s) 156, 384
PspPPI RGGWCCY 1 cut(s) 156
PstI CTGCAG 1 cut(s) 340
RsaI GTAC 1 cut(s) 429
RsaNI GTAC 1 cut(s) 428
SaqAI TTAA 1 cut(s) 198
SatI GCNGC 2 cut(s) 47, 339
Sau3AI GATC 1 cut(s) 91
Sau96I GGNCC 2 cut(s) 156, 384
SchI GAGTC 3 cut(s) 86, 341, 364
ScrFI CCNGG 1 cut(s) 275
SduI GDGCHC 1 cut(s) 590
SfaNI GCATC 2 cut(s) 129, 555
SfcI CTRYAG 2 cut(s) 120, 336
SinI GGWCC 2 cut(s) 156, 384
SmlI CTYRAG 1 cut(s) 25
SmoI CTYRAG 1 cut(s) 25
Sse9I AATT 1 cut(s) 461
SsiI CCGC 2 cut(s) 47, 560
SspMI CTAG 2 cut(s) 81, 591
StyD4I CCNGG 1 cut(s) 273
TaaI ACNGT 2 cut(s) 136, 449
TaiI ACGT 2 cut(s) 232, 411
TaqI TCGA 1 cut(s) 303
TaqII GACCGA 1 cut(s) 401
TasI AATT 1 cut(s) 461
TauI GCSGC 1 cut(s) 49
Tru1I TTAA 1 cut(s) 198
Tru9I TTAA 1 cut(s) 198
TscAI CASTG 3 cut(s) 141, 472, 523
TseFI GTSAC 1 cut(s) 212
TseI GCWGC 1 cut(s) 338
Tsp45I GTSAC 1 cut(s) 212
TspDTI ATGAA 1 cut(s) 47
TspGWI ACGGA 1 cut(s) 248
TspRI CASTG 3 cut(s) 141, 472, 523
VpaK11BI GGWCC 2 cut(s) 156, 384
XapI RAATTY 1 cut(s) 461
XmnI GAANNNNTTC 2 cut(s) 254, 398
XspI CTAG 2 cut(s) 81, 591
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.