pycom1256g00020

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
tig00001256
OG0000437
Physical Location & Seq
Forward (+)
15531 .. 16186
656 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom1256g00020.1

Sequence Viewer

Length: 600 bp
ATGGCATTTCTTGAAAAGTTCTTTCCTACTTCAAGAGTCATTCTCTTGAGAAAGAAGATTAGCGGAATCCAACAAAGTCAAGGGGAGTCTTTTCAAACATACTATGAGCGTTTTAAAGCCCTTGTTGCATCGTGTCCTCAACATCAAATGAAGGAGGAGCTTCTACTTCAATACTTCTATGAAGGTCTTCTTCCCATTGAAAGGCAAATGCTTGATGCTTCGGCGGGAGGTGCGTTGGTGGATAAAACTCCCATGGCAGCCAAGAACCTCATTGCGAACCGGGCTCTCAATGCACAACAATACGAAGGAATTGGGCAAAGGGACCCCCCACGGCAACAAGTGCATGAGGTAAGTTCTCAATCCGATATTCAAACTCAATTAGCTAATCTTATTTCTCTTGTGTCTCAGATGGCCGAAGGAATGAAGATACAAGGTCTAATTGTATGTGGCGTATGTTCTATTCAAGGGCATCCTTCGGAAAAGTGCCCTCAATTGATTGAGAATGGGGGATGGGAGAGTGCAAACGCCATTGGATTTCCAAGCCAAAATCAACCAAGGAATGATCCATATTCCAATACATACAATCTGGGTTGGCTTTAG
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
Retrotrans_gag

Protein Analysis

200

Amino Acids

22.21

Weight (kDa)

6.3

Isoelectric Point (pI)

47.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 2 - 64 4.8e-12 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: OG0000437)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G06105
fragaria_vesca FvH4_1g09709 FvH4_4g02101 FvH4_4g08975 FvH4_6g23372 FvH4_6g39851 FvH4_c1g00300
malus_domestica MD01G1176100.v1.1 MD09G1284900.v1.1 MD15G1306600.v1.1
prunus_persica Prupe.1G227700_v2.0.a1
pyrus_communis pycom01g00630 pycom01g01020 pycom01g01690 pycom01g01760 pycom01g04190 pycom01g04400 pycom02g18130 pycom03g10160 pycom05g06370 pycom05g08930 pycom06g05590 pycom10g06320 pycom11g14330 pycom11g15320 pycom11g16240 pycom12416g00050 pycom12420g00010 pycom12420g00120 pycom12426g00180 pycom12426g00710 pycom12531g00010 pycom1256g00020 pycom1256g00050 pycom1341g00030 pycom1353g00030 pycom13g23070 pycom13g23210 pycom13g26260 pycom13g26370 pycom13g26470 pycom13g26980 pycom14g08550 pycom14g08850 pycom1534g00040 pycom15g28760 pycom15g31230 pycom1604g00040 pycom16g21900 pycom16g26030 pycom1739g00020 pycom1739g00050 pycom17g12970 pycom17g17960 pycom17g18300 pycom17g18650 pycom2172g00020 pycom2438g00020 pycom436g00370 pycom436g00390 pycom576g00050 pycom76g00020
rosa_chinensis RchiOBHm_Chr1g0320811 RchiOBHm_Chr2g0135321 RchiOBHm_Chr3g0485721 RchiOBHm_Chr7g0236571
rosa_multiflora Rmu_sc0000185.1_g000007 Rmu_sc0002094.1_g000030 Rmu_sc0002764.1_g000007 Rmu_sc0002809.1_g000014 Rmu_sc0003005.1_g000007 Rmu_sc0003798.1_g000005 Rmu_sc0004646.1_g000027 Rmu_sc0004665.1_g000009 Rmu_sc0004818.1_g000001 Rmu_sc0004988.1_g000031 Rmu_sc0006373.1_g000007 Rmu_sc0007142.1_g000015 Rmu_sc0009930.1_g000001 Rmu_sc0011451.1_g000001 Rmu_sc0020424.1_g000001 Rmu_sc0036944.1_g000001 Rmu_ssc0000062.1_g000010
rosa_roxburghii Rroxscaffold_2G00123930 Rroxscaffold_3G00231480 Rroxscaffold_6G00413880
rosa_rugosa Rorug04G0084800
rosa_samantha Rh3BG150500 Rh6DG232400
rosa_wichuraiana Rw2G018400 Rw3G027860 Rw4G021220 Rw6G020670 Rw6G037970

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 63, 224
AclWI GGATC 1 cut(s) 557
AcoI YGGCCR 1 cut(s) 411
AfiI CCNNNNNNNGG 1 cut(s) 201
AgsI TTSAA 7 cut(s) 14, 33, 95, 170, 200, 371, 464
AluBI AGCT 2 cut(s) 160, 383
AluI AGCT 2 cut(s) 160, 383
Alw26I GTCTC 1 cut(s) 408
AlwI GGATC 1 cut(s) 557
AoxI GGCC 1 cut(s) 411
ApeKI GCWGC 1 cut(s) 257
Asp700I GAANNNNTTC 1 cut(s) 186
AspS9I GGNCC 1 cut(s) 322
AsuC2I CCSGG 1 cut(s) 281
AvaII GGWCC 1 cut(s) 322
BaeGI GKGCMC 1 cut(s) 488
BanII GRGCYC 1 cut(s) 286
BbsI GAAGAC 1 cut(s) 179
BbvI GCAGC 1 cut(s) 269
BccI CCATC 2 cut(s) 403, 504
BceAI ACGGC 1 cut(s) 347
BcnI CCSGG 1 cut(s) 281
BcoDI GTCTC 1 cut(s) 408
BisI GCNGC 1 cut(s) 258
BlsI GCNGC 1 cut(s) 259
Bme1390I CCNGG 1 cut(s) 281
Bme18I GGWCC 1 cut(s) 322
BmgT120I GGNCC 1 cut(s) 322
BmiI GGNNCC 2 cut(s) 323, 324
BmrFI CCNGG 1 cut(s) 281
BmsI GCATC 3 cut(s) 137, 205, 478
BpiI GAAGAC 1 cut(s) 179
BplI GAGNNNNNCTC 2 cut(s) 27, 59
BpuEI CTTGAG 1 cut(s) 67
BpuMI CCSGG 1 cut(s) 281
BsaJI CCNNGG 3 cut(s) 252, 329, 554
Bsc4I CCNNNNNNNGG 1 cut(s) 201
Bse3DI GCAATG 1 cut(s) 270
BseDI CCNNGG 3 cut(s) 252, 329, 554
BseGI GGATG 2 cut(s) 469, 515
BseLI CCNNNNNNNGG 1 cut(s) 201
BseMI GCAATG 1 cut(s) 270
BseMII CTCAG 1 cut(s) 419
BseRI GAGGAG 1 cut(s) 170
BseSI GKGCMC 1 cut(s) 488
BseXI GCAGC 1 cut(s) 269
BshFI GGCC 1 cut(s) 413
BsiSI CCGG 1 cut(s) 280
BslFI GGGAC 1 cut(s) 335
BslI CCNNNNNNNGG 1 cut(s) 201
BsmAI GTCTC 1 cut(s) 408
BsmFI GGGAC 1 cut(s) 335
BsnI GGCC 1 cut(s) 413
Bsp1286I GDGCHC 2 cut(s) 286, 488
Bsp143I GATC 1 cut(s) 562
Bsp19I CCATGG 1 cut(s) 252
BspACI CCGC 2 cut(s) 63, 224
BspANI GGCC 1 cut(s) 413
BspCNI CTCAG 1 cut(s) 418
BspLI GGNNCC 2 cut(s) 323, 324
BspPI GGATC 1 cut(s) 557
BsrDI GCAATG 1 cut(s) 270
BssECI CCNNGG 3 cut(s) 252, 329, 554
BssMI GATC 1 cut(s) 562
BssT1I CCWWGG 2 cut(s) 252, 554
BstAPI GCANNNNNTGC 1 cut(s) 340
BstDEI CTNAG 1 cut(s) 405
BstDSI CCRYGG 2 cut(s) 252, 329
BstF5I GGATG 2 cut(s) 469, 515
BstKTI GATC 1 cut(s) 565
BstMAI GTCTC 1 cut(s) 408
BstMBI GATC 1 cut(s) 562
BstMWI GCNNNNNNNGC 5 cut(s) 125, 230, 281, 290, 340
BstSCI CCNGG 1 cut(s) 279
BstSLI GKGCMC 1 cut(s) 488
BstV1I GCAGC 1 cut(s) 269
BstV2I GAAGAC 1 cut(s) 179
BsuRI GGCC 1 cut(s) 413
BtgI CCRYGG 2 cut(s) 252, 329
BtsCI GGATG 2 cut(s) 469, 515
Cfr13I GGNCC 1 cut(s) 322
CviAII CATG 2 cut(s) 253, 344
CviJI RGCY 8 cut(s) 119, 160, 260, 284, 383, 413, 543, 595
CviKI_1 RGCY 8 cut(s) 119, 160, 260, 284, 383, 413, 543, 595
DdeI CTNAG 1 cut(s) 405
DpnI GATC 1 cut(s) 564
DpnII GATC 1 cut(s) 562
DraI TTTAAA 1 cut(s) 115
EaeI YGGCCR 1 cut(s) 411
Eco130I CCWWGG 2 cut(s) 252, 554
Eco24I GRGCYC 1 cut(s) 286
Eco47I GGWCC 1 cut(s) 322
EcoO109I RGGNCCY 1 cut(s) 322
EcoT14I CCWWGG 2 cut(s) 252, 554
EcoT38I GRGCYC 1 cut(s) 286
ErhI CCWWGG 2 cut(s) 252, 554
FaeI CATG 2 cut(s) 256, 347
FaiI YATR 9 cut(s) 100, 105, 180, 254, 345, 445, 454, 568, 580
FalI AAGNNNNNCTT 2 cut(s) 174, 206
FaqI GGGAC 1 cut(s) 335
FatI CATG 2 cut(s) 252, 343
FauI CCCGC 1 cut(s) 217
Fnu4HI GCNGC 1 cut(s) 258
FokI GGATG 2 cut(s) 456, 522
FriOI GRGCYC 1 cut(s) 286
Fsp4HI GCNGC 1 cut(s) 258
GluI GCNGC 1 cut(s) 258
HaeIII GGCC 1 cut(s) 413
HapII CCGG 1 cut(s) 280
Hin1II CATG 2 cut(s) 256, 347
HinfI GANTC 3 cut(s) 36, 66, 86
HpaII CCGG 1 cut(s) 280
Hpy188I TCNGA 3 cut(s) 364, 408, 478
Hpy188III TCNNGA 3 cut(s) 11, 33, 46
HpyAV CCTTC 5 cut(s) 145, 176, 299, 410, 483
HpyCH4V TGCA 4 cut(s) 128, 293, 343, 521
HpyF10VI GCNNNNNNNGC 5 cut(s) 125, 230, 281, 290, 340
HpyF3I CTNAG 1 cut(s) 405
Hsp92II CATG 2 cut(s) 256, 347
KflI GGGWCCC 1 cut(s) 322
Kzo9I GATC 1 cut(s) 562
LmnI GCTCC 1 cut(s) 157
LpnPI CCDG 2 cut(s) 293, 572
Lsp1109I GCAGC 1 cut(s) 269
LweI GCATC 3 cut(s) 137, 205, 478
MalI GATC 1 cut(s) 564
MboI GATC 1 cut(s) 562
MboII GAAGA 4 cut(s) 67, 179, 182, 436
MfeI CAATTG 1 cut(s) 491
MhlI GDGCHC 2 cut(s) 286, 488
MluCI AATT 4 cut(s) 309, 377, 438, 491
MlyI GAGTC 2 cut(s) 45, 95
MmeI TCCRAC 1 cut(s) 94
MnlI CCTC 6 cut(s) 147, 148, 221, 278, 340, 498
MroXI GAANNNNTTC 1 cut(s) 186
MseI TTAA 1 cut(s) 114
MspI CCGG 1 cut(s) 280
MspR9I CCNGG 1 cut(s) 281
MunI CAATTG 1 cut(s) 491
MwoI GCNNNNNNNGC 5 cut(s) 125, 230, 281, 290, 340
NciI CCSGG 1 cut(s) 281
NcoI CCATGG 1 cut(s) 252
NdeII GATC 1 cut(s) 562
NlaIII CATG 2 cut(s) 256, 347
NlaIV GGNNCC 2 cut(s) 323, 324
PdmI GAANNNNTTC 1 cut(s) 186
PfeI GAWTC 1 cut(s) 66
PkrI GCNGC 1 cut(s) 259
PleI GAGTC 2 cut(s) 44, 94
PpsI GAGTC 2 cut(s) 44, 94
PpuMI RGGWCCY 1 cut(s) 322
Psp5II RGGWCCY 1 cut(s) 322
PspN4I GGNNCC 2 cut(s) 323, 324
PspPI GGNCC 1 cut(s) 322
PspPPI RGGWCCY 1 cut(s) 322
SaqAI TTAA 1 cut(s) 114
SatI GCNGC 1 cut(s) 258
Sau3AI GATC 1 cut(s) 562
Sau96I GGNCC 1 cut(s) 322
SchI GAGTC 2 cut(s) 45, 95
ScrFI CCNGG 1 cut(s) 281
SduI GDGCHC 2 cut(s) 286, 488
SetI ASST 7 cut(s) 162, 187, 232, 270, 351, 385, 436
SfaNI GCATC 3 cut(s) 137, 205, 478
SinI GGWCC 1 cut(s) 322
SmlI CTYRAG 1 cut(s) 46
SmoI CTYRAG 1 cut(s) 46
Sse9I AATT 4 cut(s) 309, 377, 438, 491
SsiI CCGC 2 cut(s) 63, 224
StyD4I CCNGG 1 cut(s) 279
StyI CCWWGG 2 cut(s) 252, 554
TasI AATT 4 cut(s) 309, 377, 438, 491
TfiI GAWTC 1 cut(s) 66
Tru1I TTAA 1 cut(s) 114
Tru9I TTAA 1 cut(s) 114
TseI GCWGC 1 cut(s) 257
TspDTI ATGAA 3 cut(s) 164, 195, 437
VpaK11BI GGWCC 1 cut(s) 322
XmnI GAANNNNTTC 1 cut(s) 186
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.