pycom06g05590

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr6
OG0000437
Physical Location & Seq
Reverse (-)
8368003 .. 8380436
12434 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom06g05590.9

Sequence Viewer

Length: 735 bp
ATGCAAAACTTTGAAATTAAAGAAACACCTAAACATTCCAACAACTCAAACTTGAATTTCCAACAACTCAAACTTGAATTGTATGAACGTTTAGGCCCTCTTATCTTCCTCGTTGTTGTAGCACAAGGTCTAAGGGAAGTGTTTGAGGGGATGAGCACGAGTGGCAGGAATGAACGATCAATGATTCTAGGGAAATCTGAAGAAGAGGAGGAGGAACCCACGGCAAGGGTTTTTGAAGAACCACAAGTCATGGCCGTGGACACCCGGACACTCAAGGAGCTTTCGGCCTCGGGATTGGATAATGCCGCACCCTTGTGTATCCAATATCCCCCACCTGCCGAAGGGAAGACTGACGAGTTCGAGTTGAAGTCCAGTTTGCTCCACCATATTCCGAAGTACCATGGGATGTCCATGGAGGATCCGAACAAGCACTTGAAGGAATTTGAGGTAGTGTGTTCAAGCATGACTCCCGTTAACGTCGACGAAAGCATATTGAAGATGAAGGCTTTCCCATTTTCTTTGATGGACAAAGCCAAGGATTGGTTGTACGACTTAGCTCCCGGAACCGTCACATCATGGGAGAGCATGAAGAGGGCTTTTCTGGAGAAGTTTTTCCCAACTTCTCGAATCATCCTTTTGCGTAAAAGGATAAATGGAAGTGTTTGTGGTGTGTTGTGTATGAAAATGAGATGTGAAGTGGATGTTGTAGGTGAAGTAGGTGGATGTTGTAGGTGA
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
RVT_1 Retrotrans_gag rve

Protein Analysis

245

Amino Acids

27.64

Weight (kDa)

5.53

Isoelectric Point (pI)

45.66

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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)
AarI CACCTGC 1 cut(s) 343
Acc36I ACCTGC 1 cut(s) 343
AccB7I CCANNNNNTGG 1 cut(s) 540
AccI GTMKAC 1 cut(s) 480
AciI CCGC 1 cut(s) 306
AclI AACGTT 1 cut(s) 88
AclWI GGATC 2 cut(s) 413, 426
AcoI YGGCCR 1 cut(s) 252
AcsI RAATTY 2 cut(s) 55, 440
AcuI CTGAAG 1 cut(s) 219
AfaI GTAC 2 cut(s) 398, 548
AfiI CCNNNNNNNGG 3 cut(s) 225, 341, 540
AgsI TTSAA 8 cut(s) 14, 55, 77, 236, 367, 436, 459, 496
AleI CACNNNNGTG 1 cut(s) 313
AluBI AGCT 2 cut(s) 280, 557
AluI AGCT 2 cut(s) 280, 557
Alw21I GWGCWC 1 cut(s) 158
AlwI GGATC 2 cut(s) 413, 426
Ama87I CYCGRG 1 cut(s) 289
AoxI GGCC 3 cut(s) 94, 252, 285
ApoI RAATTY 2 cut(s) 55, 440
Asp700I GAANNNNTTC 2 cut(s) 506, 611
AspS9I GGNCC 1 cut(s) 95
AsuC2I CCSGG 2 cut(s) 265, 561
AsuHPI GGTGA 1 cut(s) 722
AvaI CYCGRG 1 cut(s) 289
BamHI GGATCC 1 cut(s) 418
BauI CACGAG 1 cut(s) 157
BbsI GAAGAC 1 cut(s) 353
Bbv12I GWGCWC 1 cut(s) 158
BccI CCATC 1 cut(s) 517
BceAI ACGGC 2 cut(s) 237, 239
BciVI GTATCC 1 cut(s) 329
BcnI CCSGG 2 cut(s) 265, 561
BfaI CTAG 1 cut(s) 188
BfuAI ACCTGC 1 cut(s) 343
BfuI GTATCC 1 cut(s) 329
BisI GCNGC 1 cut(s) 306
BlsI GCNGC 1 cut(s) 307
Bme1390I CCNGG 2 cut(s) 265, 561
BmeT110I CYCGRG 1 cut(s) 289
BmgT120I GGNCC 1 cut(s) 95
BmiI GGNNCC 3 cut(s) 216, 420, 565
BmrFI CCNGG 2 cut(s) 265, 561
BpiI GAAGAC 1 cut(s) 353
BpmI CTGGAG 1 cut(s) 623
BpuEI CTTGAG 1 cut(s) 257
BpuMI CCSGG 2 cut(s) 265, 561
BsaJI CCNNGG 6 cut(s) 219, 255, 288, 400, 411, 534
Bsc4I CCNNNNNNNGG 3 cut(s) 225, 341, 540
Bse1I ACTGG 1 cut(s) 372
BseDI CCNNGG 6 cut(s) 219, 255, 288, 400, 411, 534
BseGI GGATG 5 cut(s) 156, 411, 630, 706, 728
BseLI CCNNNNNNNGG 3 cut(s) 225, 341, 540
BseNI ACTGG 1 cut(s) 372
BseRI GAGGAG 2 cut(s) 221, 224
BshFI GGCC 3 cut(s) 96, 254, 287
BsiHKAI GWGCWC 1 cut(s) 158
BsiHKCI CYCGRG 1 cut(s) 289
BsiSI CCGG 2 cut(s) 265, 561
BslI CCNNNNNNNGG 3 cut(s) 225, 341, 540
BsnI GGCC 3 cut(s) 96, 254, 287
BsoBI CYCGRG 1 cut(s) 289
Bsp1286I GDGCHC 1 cut(s) 158
Bsp143I GATC 2 cut(s) 176, 418
Bsp19I CCATGG 2 cut(s) 400, 411
BspACI CCGC 1 cut(s) 306
BspANI GGCC 3 cut(s) 96, 254, 287
BspLI GGNNCC 3 cut(s) 216, 420, 565
BspMI ACCTGC 1 cut(s) 343
BspPI GGATC 2 cut(s) 413, 426
BsrI ACTGG 1 cut(s) 372
BssECI CCNNGG 6 cut(s) 219, 255, 288, 400, 411, 534
BssMI GATC 2 cut(s) 176, 418
BssSI CACGAG 1 cut(s) 157
BssT1I CCWWGG 3 cut(s) 400, 411, 534
Bst2BI CACGAG 1 cut(s) 157
Bst4CI ACNGT 1 cut(s) 568
Bst6I CTCTTC 2 cut(s) 198, 584
BstDEI CTNAG 2 cut(s) 131, 553
BstDSI CCRYGG 4 cut(s) 219, 255, 400, 411
BstENI CCTNNNNNAGG 1 cut(s) 339
BstF5I GGATG 5 cut(s) 156, 411, 630, 706, 728
BstKTI GATC 2 cut(s) 179, 421
BstMBI GATC 2 cut(s) 176, 418
BstMWI GCNNNNNNNGC 1 cut(s) 162
BstSCI CCNGG 2 cut(s) 263, 559
BstV2I GAAGAC 1 cut(s) 353
BstX2I RGATCY 1 cut(s) 418
BstYI RGATCY 1 cut(s) 418
BsuI GTATCC 1 cut(s) 329
BsuRI GGCC 3 cut(s) 96, 254, 287
BtgI CCRYGG 4 cut(s) 219, 255, 400, 411
BtsCI GGATG 5 cut(s) 156, 411, 630, 706, 728
BveI ACCTGC 1 cut(s) 343
Cfr13I GGNCC 1 cut(s) 95
Csp6I GTAC 2 cut(s) 397, 547
CviAII CATG 6 cut(s) 250, 401, 412, 463, 576, 586
CviJI RGCY 8 cut(s) 96, 254, 280, 287, 506, 533, 557, 596
CviKI_1 RGCY 8 cut(s) 96, 254, 280, 287, 506, 533, 557, 596
CviQI GTAC 2 cut(s) 397, 547
DdeI CTNAG 2 cut(s) 131, 553
DpnI GATC 2 cut(s) 178, 420
DpnII GATC 2 cut(s) 176, 418
EaeI YGGCCR 1 cut(s) 252
Eam1104I CTCTTC 2 cut(s) 198, 584
EarI CTCTTC 2 cut(s) 198, 584
Eco130I CCWWGG 3 cut(s) 400, 411, 534
Eco57I CTGAAG 1 cut(s) 219
Eco88I CYCGRG 1 cut(s) 289
EcoNI CCTNNNNNAGG 1 cut(s) 339
EcoO109I RGGNCCY 1 cut(s) 95
EcoT14I CCWWGG 3 cut(s) 400, 411, 534
ErhI CCWWGG 3 cut(s) 400, 411, 534
FaeI CATG 6 cut(s) 253, 404, 415, 466, 579, 589
FatI CATG 6 cut(s) 249, 400, 411, 462, 575, 585
FblI GTMKAC 1 cut(s) 480
Fnu4HI GCNGC 1 cut(s) 306
FokI GGATG 4 cut(s) 163, 418, 617, 713
Fsp4HI GCNGC 1 cut(s) 306
FspBI CTAG 1 cut(s) 188
GluI GCNGC 1 cut(s) 306
GsuI CTGGAG 1 cut(s) 623
HaeIII GGCC 3 cut(s) 96, 254, 287
HapII CCGG 2 cut(s) 265, 561
Hin1II CATG 6 cut(s) 253, 404, 415, 466, 579, 589
HincII GTYRAC 2 cut(s) 475, 481
HindII GTYRAC 2 cut(s) 475, 481
HinfI GANTC 3 cut(s) 184, 466, 627
HpaI GTTAAC 1 cut(s) 475
HpaII CCGG 2 cut(s) 265, 561
HphI GGTGA 1 cut(s) 722
Hpy166II GTNNAC 3 cut(s) 259, 475, 481
Hpy188I TCNGA 3 cut(s) 199, 393, 423
Hpy188III TCNNGA 3 cut(s) 291, 602, 624
Hpy8I GTNNAC 3 cut(s) 259, 475, 481
Hpy99I CGWCG 2 cut(s) 482, 485
HpyAV CCTTC 3 cut(s) 335, 430, 496
HpyCH4III ACNGT 1 cut(s) 568
HpyCH4IV ACGT 2 cut(s) 88, 477
HpyCH4V TGCA 1 cut(s) 4
HpyF10VI GCNNNNNNNGC 1 cut(s) 162
HpyF3I CTNAG 2 cut(s) 131, 553
HpySE526I ACGT 2 cut(s) 88, 477
Hsp92II CATG 6 cut(s) 253, 404, 415, 466, 579, 589
KspAI GTTAAC 1 cut(s) 475
Kzo9I GATC 2 cut(s) 176, 418
LmnI GCTCC 3 cut(s) 277, 384, 562
LpnPI CCDG 6 cut(s) 151, 278, 348, 385, 574, 587
MaeI CTAG 1 cut(s) 188
MaeII ACGT 2 cut(s) 88, 477
MaeIII GTNAC 1 cut(s) 568
MalI GATC 2 cut(s) 178, 420
MboI GATC 2 cut(s) 176, 418
MboII GAAGA 7 cut(s) 97, 212, 215, 248, 358, 508, 601
MflI RGATCY 1 cut(s) 418
MhlI GDGCHC 1 cut(s) 158
MluCI AATT 4 cut(s) 15, 55, 77, 440
MlyI GAGTC 1 cut(s) 460
MmeI TCCRAC 2 cut(s) 63, 85
MroXI GAANNNNTTC 2 cut(s) 506, 611
MseI TTAA 2 cut(s) 18, 474
MslI CAYNNNNRTG 2 cut(s) 254, 313
MspI CCGG 2 cut(s) 265, 561
MspR9I CCNGG 2 cut(s) 265, 561
MwoI GCNNNNNNNGC 1 cut(s) 162
NciI CCSGG 2 cut(s) 265, 561
NcoI CCATGG 2 cut(s) 400, 411
NdeII GATC 2 cut(s) 176, 418
NlaIII CATG 6 cut(s) 253, 404, 415, 466, 579, 589
NlaIV GGNNCC 3 cut(s) 216, 420, 565
NmuCI GTSAC 1 cut(s) 568
OliI CACNNNNGTG 1 cut(s) 313
PaqCI CACCTGC 1 cut(s) 343
PdmI GAANNNNTTC 2 cut(s) 506, 611
PfeI GAWTC 2 cut(s) 184, 627
PflMI CCANNNNNTGG 1 cut(s) 540
PfoI TCCNGGA 1 cut(s) 559
PkrI GCNGC 1 cut(s) 307
PleI GAGTC 1 cut(s) 460
PpsI GAGTC 1 cut(s) 460
Psp1406I AACGTT 1 cut(s) 88
PspN4I GGNNCC 3 cut(s) 216, 420, 565
PspPI GGNCC 1 cut(s) 95
PsuI RGATCY 1 cut(s) 418
RsaI GTAC 2 cut(s) 398, 548
RsaNI GTAC 2 cut(s) 397, 547
RseI CAYNNNNRTG 2 cut(s) 254, 313
SalI GTCGAC 1 cut(s) 479
SaqAI TTAA 2 cut(s) 18, 474
SatI GCNGC 1 cut(s) 306
Sau3AI GATC 2 cut(s) 176, 418
Sau96I GGNCC 1 cut(s) 95
SchI GAGTC 1 cut(s) 460
ScrFI CCNGG 2 cut(s) 265, 561
SduI GDGCHC 1 cut(s) 158
SgrDI CGTCGACG 1 cut(s) 479
SmiMI CAYNNNNRTG 2 cut(s) 254, 313
SmlI CTYRAG 1 cut(s) 272
SmoI CTYRAG 1 cut(s) 272
Sse9I AATT 4 cut(s) 15, 55, 77, 440
SsiI CCGC 1 cut(s) 306
SspMI CTAG 1 cut(s) 188
StyD4I CCNGG 2 cut(s) 263, 559
StyI CCWWGG 3 cut(s) 400, 411, 534
TaaI ACNGT 1 cut(s) 568
TaiI ACGT 2 cut(s) 91, 480
TaqI TCGA 3 cut(s) 360, 480, 625
TasI AATT 4 cut(s) 15, 55, 77, 440
TauI GCSGC 1 cut(s) 308
TfiI GAWTC 2 cut(s) 184, 627
Tru1I TTAA 2 cut(s) 18, 474
Tru9I TTAA 2 cut(s) 18, 474
TseFI GTSAC 1 cut(s) 568
Tsp45I GTSAC 1 cut(s) 568
TspDTI ATGAA 5 cut(s) 99, 186, 515, 602, 695
Van91I CCANNNNNTGG 1 cut(s) 540
XagI CCTNNNNNAGG 1 cut(s) 339
XapI RAATTY 2 cut(s) 55, 440
XmiI GTMKAC 1 cut(s) 480
XmnI GAANNNNTTC 2 cut(s) 506, 611
XspI CTAG 1 cut(s) 188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.