pycom12g06150

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr12
OG0000562
Physical Location & Seq
Forward (+)
6227631 .. 6228285
655 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom12g06150.1

Sequence Viewer

Length: 573 bp
ATGTTGTTGTGTTGTTGCACCTGTGTTGTGTGTTGTTGTTGTGCTGTTGCACATAGACAGCAAGGAATGTTGCGGTGCTGTTGCACATGGACAACAAGGAATGTTGCGGTGCTGTTGCACCGTGTAAAGCTTTCTGTTATTGTGTATTACAATTCAAATCAGAAAATTCAATATGGTATTAGAGCGGTGATCTCTATCGACCTCATGGCTGAAAAGAGCTCCGTGCATGGCAAAGAAGTAAACTCACATGCTGCGTCTTCTTCATCTCATCTAGACGTTGATATCAATCCAAATCAACGTCTCAGTTCGGTCCTACTAAATGAGTTCAACTATCTACCGTGGGAGAGAGCTGTCTCTCTTGCGTTAGGAGGACGATCGAAGCTTGGTTATGTTAATGGCGTGATTCCAGCACCTGATGTGTCCTCATCTGATTACAATGATTGGCTGTGCAAGGACCAGCTGGTCATGTCATGGCTGCTCAACTCTATGAATCGAAAGATTGCAGAAATCTTCAGTTATGCGGAATCTTCATACGTTCTCTGGAAAAATCTCAAAGAGATGTATGGAAATTAG
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
Retrotran_gag_2 Retrotran_gag_3 rve

Protein Analysis

191

Amino Acids

21.35

Weight (kDa)

8.44

Isoelectric Point (pI)

29.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 100 - 139 4.5e-13 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 461
AccBSI CCGCTC 1 cut(s) 185
AciI CCGC 4 cut(s) 73, 107, 185, 521
AcsI RAATTY 1 cut(s) 165
AcuI CTGAAG 1 cut(s) 496
AgsI TTSAA 3 cut(s) 156, 170, 328
AluBI AGCT 5 cut(s) 130, 219, 350, 382, 460
AluI AGCT 5 cut(s) 130, 219, 350, 382, 460
Alw21I GWGCWC 1 cut(s) 221
Alw26I GTCTC 2 cut(s) 305, 358
AlwNI CAGNNNCTG 1 cut(s) 413
ApeKI GCWGC 2 cut(s) 251, 475
ApoI RAATTY 1 cut(s) 165
AspS9I GGNCC 2 cut(s) 310, 454
AsuHPI GGTGA 1 cut(s) 199
AvaII GGWCC 2 cut(s) 310, 454
BanII GRGCYC 1 cut(s) 221
BbsI GAAGAC 1 cut(s) 249
Bbv12I GWGCWC 1 cut(s) 221
BbvI GCAGC 2 cut(s) 238, 462
BcoDI GTCTC 2 cut(s) 305, 358
BfaI CTAG 1 cut(s) 272
BisI GCNGC 2 cut(s) 252, 476
BlsI GCNGC 2 cut(s) 253, 477
Bme18I GGWCC 2 cut(s) 310, 454
BmgT120I GGNCC 2 cut(s) 310, 454
BpiI GAAGAC 1 cut(s) 249
BsaBI GATNNNNATC 2 cut(s) 194, 285
BsaJI CCNNGG 1 cut(s) 338
Bse8I GATNNNNATC 2 cut(s) 194, 285
BseDI CCNNGG 1 cut(s) 338
BseJI GATNNNNATC 2 cut(s) 194, 285
BseMII CTCAG 1 cut(s) 316
BseXI GCAGC 2 cut(s) 238, 462
Bsh1285I CGRYCG 1 cut(s) 377
BsiEI CGRYCG 1 cut(s) 377
BsiHKAI GWGCWC 1 cut(s) 221
BsmAI GTCTC 2 cut(s) 305, 358
BsmBI CGTCTC 1 cut(s) 305
Bsp1286I GDGCHC 1 cut(s) 221
Bsp143I GATC 2 cut(s) 189, 374
BspACI CCGC 4 cut(s) 73, 107, 185, 521
BspCNI CTCAG 1 cut(s) 315
BsrBI CCGCTC 1 cut(s) 185
BssECI CCNNGG 1 cut(s) 338
BssMI GATC 2 cut(s) 189, 374
Bst4CI ACNGT 2 cut(s) 122, 339
BstDEI CTNAG 1 cut(s) 302
BstDSI CCRYGG 1 cut(s) 338
BstKTI GATC 2 cut(s) 192, 377
BstMAI GTCTC 2 cut(s) 305, 358
BstMBI GATC 2 cut(s) 189, 374
BstMCI CGRYCG 1 cut(s) 377
BstNSI RCATGY 1 cut(s) 251
BstV1I GCAGC 2 cut(s) 238, 462
BstV2I GAAGAC 1 cut(s) 249
BtgI CCRYGG 1 cut(s) 338
CaiI CAGNNNCTG 1 cut(s) 413
Cfr13I GGNCC 2 cut(s) 310, 454
CseI GACGC 1 cut(s) 243
CviAII CATG 6 cut(s) 87, 205, 227, 248, 466, 471
CviJI RGCY 8 cut(s) 130, 209, 219, 350, 382, 445, 460, 475
CviKI_1 RGCY 8 cut(s) 130, 209, 219, 350, 382, 445, 460, 475
DdeI CTNAG 1 cut(s) 302
DpnI GATC 2 cut(s) 191, 376
DpnII GATC 2 cut(s) 189, 374
DrdI GACNNNNNNGTC 1 cut(s) 461
DseDI GACNNNNNNGTC 1 cut(s) 461
Ecl136II GAGCTC 1 cut(s) 219
Eco24I GRGCYC 1 cut(s) 221
Eco32I GATATC 1 cut(s) 283
Eco47I GGWCC 2 cut(s) 310, 454
Eco53kI GAGCTC 1 cut(s) 219
Eco57I CTGAAG 1 cut(s) 496
EcoICRI GAGCTC 1 cut(s) 219
EcoRV GATATC 1 cut(s) 283
EcoT38I GRGCYC 1 cut(s) 221
Esp3I CGTCTC 1 cut(s) 305
FaeI CATG 6 cut(s) 90, 208, 230, 251, 469, 474
FatI CATG 6 cut(s) 86, 204, 226, 247, 465, 470
Fnu4HI GCNGC 2 cut(s) 252, 476
FriOI GRGCYC 1 cut(s) 221
Fsp4HI GCNGC 2 cut(s) 252, 476
FspBI CTAG 1 cut(s) 272
GluI GCNGC 2 cut(s) 252, 476
HgaI GACGC 1 cut(s) 243
Hin1II CATG 6 cut(s) 90, 208, 230, 251, 469, 474
HindIII AAGCTT 2 cut(s) 128, 380
HinfI GANTC 3 cut(s) 403, 490, 524
HphI GGTGA 1 cut(s) 199
Hpy166II GTNNAC 1 cut(s) 241
Hpy188I TCNGA 2 cut(s) 162, 430
Hpy188III TCNNGA 2 cut(s) 272, 541
Hpy8I GTNNAC 1 cut(s) 241
HpyCH4III ACNGT 2 cut(s) 122, 339
HpyCH4IV ACGT 3 cut(s) 276, 298, 534
HpyCH4V TGCA 7 cut(s) 18, 50, 84, 118, 226, 450, 503
HpyF3I CTNAG 1 cut(s) 302
HpySE526I ACGT 3 cut(s) 276, 298, 534
Hsp92II CATG 6 cut(s) 90, 208, 230, 251, 469, 474
Kzo9I GATC 2 cut(s) 189, 374
LmnI GCTCC 1 cut(s) 224
LpnPI CCDG 6 cut(s) 34, 420, 426, 446, 470, 526
Lsp1109I GCAGC 2 cut(s) 238, 462
MaeI CTAG 1 cut(s) 272
MaeII ACGT 3 cut(s) 276, 298, 534
MalI GATC 2 cut(s) 191, 376
MbiI CCGCTC 1 cut(s) 185
MboI GATC 2 cut(s) 189, 374
MboII GAAGA 4 cut(s) 249, 252, 502, 519
MhlI GDGCHC 1 cut(s) 221
MluCI AATT 3 cut(s) 151, 165, 568
MnlI CCTC 3 cut(s) 212, 362, 433
MseI TTAA 1 cut(s) 393
MspA1I CMGCKG 1 cut(s) 460
NdeII GATC 2 cut(s) 189, 374
NlaIII CATG 6 cut(s) 90, 208, 230, 251, 469, 474
NspI RCATGY 1 cut(s) 251
PfeI GAWTC 3 cut(s) 403, 490, 524
PkrI GCNGC 2 cut(s) 253, 477
Ple19I CGATCG 1 cut(s) 377
Psp124BI GAGCTC 1 cut(s) 221
PspPI GGNCC 2 cut(s) 310, 454
PstNI CAGNNNCTG 1 cut(s) 413
PvuI CGATCG 1 cut(s) 377
PvuII CAGCTG 1 cut(s) 460
SacI GAGCTC 1 cut(s) 221
SaqAI TTAA 1 cut(s) 393
SatI GCNGC 2 cut(s) 252, 476
Sau3AI GATC 2 cut(s) 189, 374
Sau96I GGNCC 2 cut(s) 310, 454
SduI GDGCHC 1 cut(s) 221
SinI GGWCC 2 cut(s) 310, 454
Sse9I AATT 3 cut(s) 151, 165, 568
SsiI CCGC 4 cut(s) 73, 107, 185, 521
SspMI CTAG 1 cut(s) 272
SstI GAGCTC 1 cut(s) 221
TaaI ACNGT 2 cut(s) 122, 339
TaiI ACGT 3 cut(s) 279, 301, 537
TaqI TCGA 3 cut(s) 198, 377, 493
TaqII GACCGA 1 cut(s) 298
TasI AATT 3 cut(s) 151, 165, 568
TfiI GAWTC 3 cut(s) 403, 490, 524
Tru1I TTAA 1 cut(s) 393
Tru9I TTAA 1 cut(s) 393
TseI GCWGC 2 cut(s) 251, 475
TspDTI ATGAA 3 cut(s) 252, 503, 519
TspGWI ACGGA 1 cut(s) 211
VpaK11BI GGWCC 2 cut(s) 310, 454
XapI RAATTY 1 cut(s) 165
XbaI TCTAGA 1 cut(s) 271
XceI RCATGY 1 cut(s) 251
XspI CTAG 1 cut(s) 272
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.