pycom11g24900

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr11
OG0000370
Physical Location & Seq
Reverse (-)
27736016 .. 27736519
504 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom11g24900.1

Sequence Viewer

Length: 504 bp
ATGATATACCCACCAAATGAATGGGTGGATACTGCAACGTATTTTCTGAAAGAGGATGCTAAACGTTGGTGGAAATCGGTGAGGCCTCGTCCACCTAATGATCCAATGAATTGGGTTGACTTCCGAAGGACTTTCAGCGATTATTTCTTGAGTCCCAGTTATCAGCTTAGGATGAGGCAACAATTCTTGGATTTGAGTATCACGGAGGTAGACTGTACTTTTCGACGCCTGTCGAGACATCATGCAGGGACTTATGGAAACCCGGGTGAAAAGATGGTCCAGTTACTAATTTGCTTGAATCTTGAATATCGTGAACCAGTGGCAGCAATAAGGCACAGGAGTTACGAGGAGATGATTGAGACTTGCTTGAGAATTGAACAGTCTAGGTGGGAGACTCAGCATCAAGCACAGGCGCAGTTACAGTTTCAGGGACCACCAAGGTATCAAGACCGACCTCGGTACCAGAACCAGAGAGGTCGTGGGTTTCGATCGATCGGAGCATGA
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

168

Amino Acids

20.19

Weight (kDa)

9.43

Isoelectric Point (pI)

60.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 12 - 66 6.2e-08 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
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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)
Acc65I GGTACC 1 cut(s) 459
AccB1I GGYRCC 1 cut(s) 459
AccI GTMKAC 1 cut(s) 210
AclI AACGTT 1 cut(s) 64
AclWI GGATC 1 cut(s) 95
AcyI GRCGYC 1 cut(s) 226
AfaI GTAC 2 cut(s) 217, 461
AgsI TTSAA 3 cut(s) 298, 305, 377
AluBI AGCT 1 cut(s) 166
AluI AGCT 1 cut(s) 166
Alw26I GTCTC 3 cut(s) 229, 353, 386
AlwI GGATC 1 cut(s) 95
Ama87I CYCGRG 1 cut(s) 262
AoxI GGCC 1 cut(s) 83
ApeKI GCWGC 1 cut(s) 323
Asp718I GGTACC 1 cut(s) 459
AspLEI GCGC 1 cut(s) 415
AspS9I GGNCC 2 cut(s) 277, 431
AsuC2I CCSGG 2 cut(s) 263, 264
AsuHPI GGTGA 2 cut(s) 91, 278
AvaI CYCGRG 1 cut(s) 262
AvaII GGWCC 2 cut(s) 277, 431
BaeI ACNNNNGTAYC 4 cut(s) 425, 443, 458, 476
BanI GGYRCC 1 cut(s) 459
BbvI GCAGC 1 cut(s) 335
BccI CCATC 1 cut(s) 268
BciVI GTATCC 1 cut(s) 22
BcnI CCSGG 2 cut(s) 263, 264
BcoDI GTCTC 3 cut(s) 229, 353, 386
BfaI CTAG 1 cut(s) 384
BfuI GTATCC 1 cut(s) 22
BisI GCNGC 1 cut(s) 324
BlsI GCNGC 1 cut(s) 325
Bme1390I CCNGG 2 cut(s) 263, 264
Bme18I GGWCC 2 cut(s) 277, 431
BmeT110I CYCGRG 1 cut(s) 262
BmgT120I GGNCC 2 cut(s) 277, 431
BmiI GGNNCC 2 cut(s) 432, 461
BmrFI CCNGG 2 cut(s) 263, 264
BmrI ACTGGG 1 cut(s) 150
BmsI GCATC 2 cut(s) 46, 409
BmuI ACTGGG 1 cut(s) 150
BoxI GACNNNNGTC 1 cut(s) 229
Bpu10I CCTNAGC 1 cut(s) 167
BpuEI CTTGAG 2 cut(s) 169, 388
BpuMI CCSGG 2 cut(s) 263, 264
Bsa29I ATCGAT 1 cut(s) 491
BsaHI GRCGYC 1 cut(s) 226
BsaJI CCNNGG 3 cut(s) 262, 437, 455
Bse1I ACTGG 3 cut(s) 156, 280, 317
BseCI ATCGAT 1 cut(s) 491
BseDI CCNNGG 3 cut(s) 262, 437, 455
BseGI GGATG 2 cut(s) 61, 177
BseMII CTCAG 1 cut(s) 410
BseNI ACTGG 3 cut(s) 156, 280, 317
BseRI GAGGAG 1 cut(s) 362
BseXI GCAGC 1 cut(s) 335
Bsh1285I CGRYCG 2 cut(s) 491, 495
BshFI GGCC 1 cut(s) 85
BshNI GGYRCC 1 cut(s) 459
BshVI ATCGAT 1 cut(s) 491
BsiEI CGRYCG 2 cut(s) 491, 495
BsiHKCI CYCGRG 1 cut(s) 262
BsiSI CCGG 1 cut(s) 263
BslFI GGGAC 3 cut(s) 138, 262, 444
BsmAI GTCTC 3 cut(s) 229, 353, 386
BsmFI GGGAC 3 cut(s) 138, 262, 444
BsnI GGCC 1 cut(s) 85
BsoBI CYCGRG 1 cut(s) 262
Bsp143I GATC 3 cut(s) 100, 488, 492
BspANI GGCC 1 cut(s) 85
BspCNI CTCAG 1 cut(s) 409
BspDI ATCGAT 1 cut(s) 491
BspLI GGNNCC 2 cut(s) 432, 461
BspPI GGATC 1 cut(s) 95
BspT107I GGYRCC 1 cut(s) 459
BsrI ACTGG 3 cut(s) 156, 280, 317
BssECI CCNNGG 3 cut(s) 262, 437, 455
BssMI GATC 3 cut(s) 100, 488, 492
BssNI GRCGYC 1 cut(s) 226
BssT1I CCWWGG 1 cut(s) 437
Bst4CI ACNGT 3 cut(s) 215, 381, 423
BstACI GRCGYC 1 cut(s) 226
BstDEI CTNAG 2 cut(s) 167, 396
BstF5I GGATG 2 cut(s) 61, 177
BstHHI GCGC 1 cut(s) 415
BstKTI GATC 3 cut(s) 103, 491, 495
BstMAI GTCTC 3 cut(s) 229, 353, 386
BstMBI GATC 3 cut(s) 100, 488, 492
BstMCI CGRYCG 2 cut(s) 491, 495
BstPAI GACNNNNGTC 1 cut(s) 229
BstSCI CCNGG 2 cut(s) 261, 262
BstV1I GCAGC 1 cut(s) 335
BstXI CCANNNNNNTGG 2 cut(s) 21, 111
Bsu15I ATCGAT 1 cut(s) 491
BsuI GTATCC 1 cut(s) 22
BsuRI GGCC 1 cut(s) 85
BsuTUI ATCGAT 1 cut(s) 491
BtsCI GGATG 2 cut(s) 61, 177
BtsIMutI CAGTG 1 cut(s) 324
CfoI GCGC 1 cut(s) 415
Cfr13I GGNCC 2 cut(s) 277, 431
Cfr9I CCCGGG 1 cut(s) 262
ClaI ATCGAT 1 cut(s) 491
CseI GACGC 1 cut(s) 234
Csp6I GTAC 2 cut(s) 216, 460
CviAII CATG 2 cut(s) 242, 501
CviJI RGCY 2 cut(s) 85, 166
CviKI_1 RGCY 2 cut(s) 85, 166
CviQI GTAC 2 cut(s) 216, 460
DdeI CTNAG 2 cut(s) 167, 396
DpnI GATC 3 cut(s) 102, 490, 494
DpnII GATC 3 cut(s) 100, 488, 492
Eco130I CCWWGG 1 cut(s) 437
Eco147I AGGCCT 1 cut(s) 85
Eco47I GGWCC 2 cut(s) 277, 431
Eco88I CYCGRG 1 cut(s) 262
EcoT14I CCWWGG 1 cut(s) 437
ErhI CCWWGG 1 cut(s) 437
FaeI CATG 2 cut(s) 245, 504
FaiI YATR 4 cut(s) 7, 243, 255, 502
FaqI GGGAC 3 cut(s) 138, 262, 444
FatI CATG 2 cut(s) 241, 500
FblI GTMKAC 1 cut(s) 210
Fnu4HI GCNGC 1 cut(s) 324
FokI GGATG 2 cut(s) 68, 184
Fsp4HI GCNGC 1 cut(s) 324
FspBI CTAG 1 cut(s) 384
GlaI GCGC 1 cut(s) 414
GluI GCNGC 1 cut(s) 324
HaeIII GGCC 1 cut(s) 85
HapII CCGG 1 cut(s) 263
HgaI GACGC 1 cut(s) 234
HhaI GCGC 1 cut(s) 415
Hin1I GRCGYC 1 cut(s) 226
Hin1II CATG 2 cut(s) 245, 504
Hin6I GCGC 1 cut(s) 413
HinP1I GCGC 1 cut(s) 413
HincII GTYRAC 1 cut(s) 118
HindII GTYRAC 1 cut(s) 118
HinfI GANTC 3 cut(s) 151, 298, 394
HpaII CCGG 1 cut(s) 263
HphI GGTGA 2 cut(s) 91, 278
Hpy166II GTNNAC 4 cut(s) 92, 118, 211, 314
Hpy188I TCNGA 3 cut(s) 48, 125, 497
Hpy188III TCNNGA 5 cut(s) 148, 234, 302, 311, 446
Hpy8I GTNNAC 4 cut(s) 92, 118, 211, 314
Hpy99I CGWCG 1 cut(s) 228
HpyAV CCTTC 1 cut(s) 120
HpyCH4III ACNGT 3 cut(s) 215, 381, 423
HpyCH4IV ACGT 2 cut(s) 38, 64
HpyCH4V TGCA 2 cut(s) 35, 245
HpyF3I CTNAG 2 cut(s) 167, 396
HpySE526I ACGT 2 cut(s) 38, 64
Hsp92I GRCGYC 1 cut(s) 226
Hsp92II CATG 2 cut(s) 245, 504
HspAI GCGC 1 cut(s) 413
KpnI GGTACC 1 cut(s) 463
Kzo9I GATC 3 cut(s) 100, 488, 492
LmnI GCTCC 1 cut(s) 497
Lsp1109I GCAGC 1 cut(s) 335
LweI GCATC 2 cut(s) 46, 409
MaeI CTAG 1 cut(s) 384
MaeII ACGT 2 cut(s) 38, 64
MaeIII GTNAC 3 cut(s) 282, 341, 417
MalI GATC 3 cut(s) 102, 490, 494
MboI GATC 3 cut(s) 100, 488, 492
MluCI AATT 4 cut(s) 109, 182, 288, 372
MlyI GAGTC 2 cut(s) 160, 388
MnlI CCTC 8 cut(s) 46, 75, 96, 168, 199, 340, 465, 467
MspI CCGG 1 cut(s) 263
MspR9I CCNGG 2 cut(s) 263, 264
NciI CCSGG 2 cut(s) 263, 264
NdeII GATC 3 cut(s) 100, 488, 492
NlaIII CATG 2 cut(s) 245, 504
NlaIV GGNNCC 2 cut(s) 432, 461
PceI AGGCCT 1 cut(s) 85
PcsI WCGNNNNNNNCGW 1 cut(s) 484
PfeI GAWTC 1 cut(s) 298
PkrI GCNGC 1 cut(s) 325
Ple19I CGATCG 2 cut(s) 491, 495
PleI GAGTC 2 cut(s) 159, 388
PpsI GAGTC 2 cut(s) 159, 388
PshAI GACNNNNGTC 1 cut(s) 229
Psp1406I AACGTT 1 cut(s) 64
PspN4I GGNNCC 2 cut(s) 432, 461
PspPI GGNCC 2 cut(s) 277, 431
PvuI CGATCG 2 cut(s) 491, 495
RsaI GTAC 2 cut(s) 217, 461
RsaNI GTAC 2 cut(s) 216, 460
SatI GCNGC 1 cut(s) 324
Sau3AI GATC 3 cut(s) 100, 488, 492
Sau96I GGNCC 2 cut(s) 277, 431
SchI GAGTC 2 cut(s) 160, 388
ScrFI CCNGG 2 cut(s) 263, 264
SetI ASST 9 cut(s) 41, 67, 97, 168, 210, 389, 443, 457, 478
SfaNI GCATC 2 cut(s) 46, 409
SinI GGWCC 2 cut(s) 277, 431
SmaI CCCGGG 1 cut(s) 264
SmlI CTYRAG 2 cut(s) 148, 367
SmoI CTYRAG 2 cut(s) 148, 367
Sse9I AATT 4 cut(s) 109, 182, 288, 372
SseBI AGGCCT 1 cut(s) 85
SspMI CTAG 1 cut(s) 384
StuI AGGCCT 1 cut(s) 85
StyD4I CCNGG 2 cut(s) 261, 262
StyI CCWWGG 1 cut(s) 437
TaaI ACNGT 3 cut(s) 215, 381, 423
TaiI ACGT 2 cut(s) 41, 67
TaqI TCGA 4 cut(s) 223, 233, 487, 491
TaqII GACCGA 1 cut(s) 465
TasI AATT 4 cut(s) 109, 182, 288, 372
TatI WGTACW 1 cut(s) 215
TfiI GAWTC 1 cut(s) 298
TscAI CASTG 1 cut(s) 324
TseI GCWGC 1 cut(s) 323
TspDTI ATGAA 2 cut(s) 33, 122
TspGWI ACGGA 1 cut(s) 218
TspMI CCCGGG 1 cut(s) 262
TspRI CASTG 1 cut(s) 324
VpaK11BI GGWCC 2 cut(s) 277, 431
XcmI CCANNNNNNNNNTGG 2 cut(s) 18, 476
XmaI CCCGGG 1 cut(s) 262
XmiI GTMKAC 1 cut(s) 210
XspI CTAG 1 cut(s) 384
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.