pycom05g08930

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0000437
Physical Location & Seq
Forward (+)
11732683 .. 11739814
7132 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom05g08930.1

Sequence Viewer

Length: 561 bp
ATGGCCGTGGACAATCGAACCATCAAAGAGCTTTCTGCCTCGGGTTTGGCCAATGCAGCCCCTCTTTGCATTCAATACCCCGCGGCTGCCCAAGGCAAGACCGATGAATTCGAGTTAAAGTCAAGCTTGTTGCACCACATTCCGAAATACCATGGGCTTTCCATGGAAGATCCCAACAAGCATCTCAAGGAGTTCGAGGTTGTTTGTTCGAGCATGACACCCATAAATGTCGATGGGAACATTCTGATGATAAAAGCTTTTCCATTCTCTCTTGTGGAAAAGGCTAAGGATTGGCTTTATGAATTGGCACCCAGGACCGTTACTTCTTGGGAAAGCATGAAGAGAGCGTTCTTGGAAAAGTTCTTCCCTACTTCAAAAATCATTCTCTTGAGGAAGAAAATTAGCGGAATCCAACAAAGTCAAGGAGAATCTTTTCCGTTTGAGTTGTTGGAATGTTTAGGTGTTTCTTTGATTTCAATGTTTAATTTCAATTCTCTTTGTTTTGTACGTATGAGGAATGGAAGAGAAGAGTGCCTAAACGTTCATACAATTCAAGTTTGA
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

187

Amino Acids

21.06

Weight (kDa)

7.66

Isoelectric Point (pI)

39.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 86 - 145 3e-09 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)
AccB1I GGYRCC 1 cut(s) 307
AccII CGCG 1 cut(s) 83
AciI CCGC 3 cut(s) 81, 83, 405
AclI AACGTT 1 cut(s) 540
AclWI GGATC 1 cut(s) 164
AcoI YGGCCR 2 cut(s) 3, 48
AcsI RAATTY 1 cut(s) 107
AfaI GTAC 1 cut(s) 507
AgsI TTSAA 5 cut(s) 74, 375, 477, 490, 554
AjnI CCWGG 1 cut(s) 311
AluBI AGCT 3 cut(s) 31, 126, 257
AluI AGCT 3 cut(s) 31, 126, 257
AlwI GGATC 1 cut(s) 164
Ama87I CYCGRG 1 cut(s) 40
AoxI GGCC 2 cut(s) 3, 48
ApeKI GCWGC 2 cut(s) 56, 86
ApoI RAATTY 1 cut(s) 107
Asp700I GAANNNNTTC 1 cut(s) 432
AspS9I GGNCC 1 cut(s) 315
AvaI CYCGRG 1 cut(s) 40
AvaII GGWCC 1 cut(s) 315
BalI TGGCCA 1 cut(s) 50
BanI GGYRCC 1 cut(s) 307
BbvI GCAGC 2 cut(s) 68, 73
BccI CCATC 2 cut(s) 29, 227
BciT130I CCWGG 1 cut(s) 313
BisI GCNGC 3 cut(s) 57, 84, 87
BlsI GCNGC 3 cut(s) 58, 85, 88
Bme1390I CCNGG 1 cut(s) 313
Bme18I GGWCC 1 cut(s) 315
BmeT110I CYCGRG 1 cut(s) 40
BmgT120I GGNCC 1 cut(s) 315
BmiI GGNNCC 1 cut(s) 309
BmrFI CCNGG 1 cut(s) 313
BmsI GCATC 1 cut(s) 190
Bpu10I CCTNAGC 1 cut(s) 285
BpuEI CTTGAG 2 cut(s) 170, 409
BsaAI YACGTR 1 cut(s) 509
BsaJI CCNNGG 7 cut(s) 6, 39, 81, 91, 151, 162, 311
BseBI CCWGG 1 cut(s) 313
BseDI CCNNGG 7 cut(s) 6, 39, 81, 91, 151, 162, 311
BseXI GCAGC 2 cut(s) 68, 73
Bsh1236I CGCG 1 cut(s) 83
BshFI GGCC 2 cut(s) 5, 50
BshNI GGYRCC 1 cut(s) 307
BsiHKCI CYCGRG 1 cut(s) 40
BsmI GAATGC 1 cut(s) 69
BsnI GGCC 2 cut(s) 5, 50
BsoBI CYCGRG 1 cut(s) 40
Bsp143I GATC 1 cut(s) 169
Bsp19I CCATGG 2 cut(s) 151, 162
BspACI CCGC 3 cut(s) 81, 83, 405
BspANI GGCC 2 cut(s) 5, 50
BspFNI CGCG 1 cut(s) 83
BspLI GGNNCC 1 cut(s) 309
BspPI GGATC 1 cut(s) 164
BspT107I GGYRCC 1 cut(s) 307
BssECI CCNNGG 7 cut(s) 6, 39, 81, 91, 151, 162, 311
BssMI GATC 1 cut(s) 169
BssT1I CCWWGG 3 cut(s) 91, 151, 162
Bst2UI CCWGG 1 cut(s) 313
Bst4CI ACNGT 1 cut(s) 319
Bst6I CTCTTC 3 cut(s) 335, 517, 522
BstBAI YACGTR 1 cut(s) 509
BstDEI CTNAG 1 cut(s) 285
BstDSI CCRYGG 4 cut(s) 6, 81, 151, 162
BstFNI CGCG 1 cut(s) 83
BstKTI GATC 1 cut(s) 172
BstMBI GATC 1 cut(s) 169
BstMWI GCNNNNNNNGC 1 cut(s) 56
BstNI CCWGG 1 cut(s) 313
BstSCI CCNGG 1 cut(s) 311
BstSNI TACGTA 1 cut(s) 509
BstUI CGCG 1 cut(s) 83
BstV1I GCAGC 2 cut(s) 68, 73
BstX2I RGATCY 1 cut(s) 169
BstYI RGATCY 1 cut(s) 169
BsuRI GGCC 2 cut(s) 5, 50
BtgI CCRYGG 4 cut(s) 6, 81, 151, 162
Cfr13I GGNCC 1 cut(s) 315
Cfr42I CCGCGG 1 cut(s) 84
Csp6I GTAC 1 cut(s) 506
CviAII CATG 4 cut(s) 152, 163, 214, 337
CviQI GTAC 1 cut(s) 506
DdeI CTNAG 1 cut(s) 285
DpnI GATC 1 cut(s) 171
DpnII GATC 1 cut(s) 169
EaeI YGGCCR 2 cut(s) 3, 48
Eam1104I CTCTTC 3 cut(s) 335, 517, 522
EarI CTCTTC 3 cut(s) 335, 517, 522
Eco105I TACGTA 1 cut(s) 509
Eco130I CCWWGG 3 cut(s) 91, 151, 162
Eco47I GGWCC 1 cut(s) 315
Eco88I CYCGRG 1 cut(s) 40
EcoRI GAATTC 1 cut(s) 107
EcoRII CCWGG 1 cut(s) 311
EcoT14I CCWWGG 3 cut(s) 91, 151, 162
ErhI CCWWGG 3 cut(s) 91, 151, 162
FaeI CATG 4 cut(s) 155, 166, 217, 340
FaiI YATR 8 cut(s) 153, 164, 215, 224, 300, 338, 512, 546
FalI AAGNNNNNCTT 2 cut(s) 110, 142
FatI CATG 4 cut(s) 151, 162, 213, 336
FauI CCCGC 1 cut(s) 88
Fnu4HI GCNGC 3 cut(s) 57, 84, 87
Fsp4HI GCNGC 3 cut(s) 57, 84, 87
GluI GCNGC 3 cut(s) 57, 84, 87
HaeIII GGCC 2 cut(s) 5, 50
Hin1II CATG 4 cut(s) 155, 166, 217, 340
HindIII AAGCTT 2 cut(s) 124, 255
HinfI GANTC 2 cut(s) 408, 428
Hpy166II GTNNAC 1 cut(s) 10
Hpy188I TCNGA 2 cut(s) 144, 246
Hpy188III TCNNGA 1 cut(s) 388
Hpy8I GTNNAC 1 cut(s) 10
HpyCH4III ACNGT 1 cut(s) 319
HpyCH4IV ACGT 2 cut(s) 508, 540
HpyCH4V TGCA 3 cut(s) 56, 69, 133
HpyF10VI GCNNNNNNNGC 1 cut(s) 56
HpyF3I CTNAG 1 cut(s) 285
HpySE526I ACGT 2 cut(s) 508, 540
Hsp92II CATG 4 cut(s) 155, 166, 217, 340
KspI CCGCGG 1 cut(s) 84
Kzo9I GATC 1 cut(s) 169
LpnPI CCDG 2 cut(s) 298, 325
Lsp1109I GCAGC 2 cut(s) 68, 73
LweI GCATC 1 cut(s) 190
MaeII ACGT 2 cut(s) 508, 540
MaeIII GTNAC 1 cut(s) 319
MalI GATC 1 cut(s) 171
MboI GATC 1 cut(s) 169
MboII GAAGA 6 cut(s) 179, 352, 355, 406, 534, 539
MflI RGATCY 1 cut(s) 169
MlsI TGGCCA 1 cut(s) 50
MluCI AATT 6 cut(s) 107, 302, 399, 484, 490, 549
MluNI TGGCCA 1 cut(s) 50
MmeI TCCRAC 2 cut(s) 429, 436
MnlI CCTC 5 cut(s) 49, 72, 190, 384, 507
Mox20I TGGCCA 1 cut(s) 50
MroXI GAANNNNTTC 1 cut(s) 432
MscI TGGCCA 1 cut(s) 50
MseI TTAA 2 cut(s) 116, 483
MslI CAYNNNNRTG 1 cut(s) 245
Msp20I TGGCCA 1 cut(s) 50
MspA1I CMGCKG 1 cut(s) 83
MspR9I CCNGG 1 cut(s) 313
Mva1269I GAATGC 1 cut(s) 69
MvaI CCWGG 1 cut(s) 313
MvnI CGCG 1 cut(s) 83
MwoI GCNNNNNNNGC 1 cut(s) 56
NcoI CCATGG 2 cut(s) 151, 162
NdeII GATC 1 cut(s) 169
NlaIII CATG 4 cut(s) 155, 166, 217, 340
NlaIV GGNNCC 1 cut(s) 309
PctI GAATGC 1 cut(s) 69
PdmI GAANNNNTTC 1 cut(s) 432
PfeI GAWTC 2 cut(s) 408, 428
PkrI GCNGC 3 cut(s) 58, 85, 88
Ppu21I YACGTR 1 cut(s) 509
Psp1406I AACGTT 1 cut(s) 540
Psp6I CCWGG 1 cut(s) 311
PspGI CCWGG 1 cut(s) 311
PspN4I GGNNCC 1 cut(s) 309
PspPI GGNCC 1 cut(s) 315
PsuI RGATCY 1 cut(s) 169
RsaI GTAC 1 cut(s) 507
RsaNI GTAC 1 cut(s) 506
RseI CAYNNNNRTG 1 cut(s) 245
SacII CCGCGG 1 cut(s) 84
SaqAI TTAA 2 cut(s) 116, 483
SatI GCNGC 3 cut(s) 57, 84, 87
Sau3AI GATC 1 cut(s) 169
Sau96I GGNCC 1 cut(s) 315
ScrFI CCNGG 1 cut(s) 313
SetI ASST 7 cut(s) 33, 128, 201, 259, 463, 511, 543
SfaNI GCATC 1 cut(s) 190
Sfr303I CCGCGG 1 cut(s) 84
SgrBI CCGCGG 1 cut(s) 84
SinI GGWCC 1 cut(s) 315
SmiMI CAYNNNNRTG 1 cut(s) 245
SmlI CTYRAG 2 cut(s) 185, 388
SmoI CTYRAG 2 cut(s) 185, 388
SnaBI TACGTA 1 cut(s) 509
Sse9I AATT 6 cut(s) 107, 302, 399, 484, 490, 549
SsiI CCGC 3 cut(s) 81, 83, 405
StyD4I CCNGG 1 cut(s) 311
StyI CCWWGG 3 cut(s) 91, 151, 162
TaaI ACNGT 1 cut(s) 319
TaiI ACGT 2 cut(s) 511, 543
TaqI TCGA 5 cut(s) 16, 111, 195, 209, 231
TaqII GACCGA 1 cut(s) 116
TasI AATT 6 cut(s) 107, 302, 399, 484, 490, 549
TauI GCSGC 1 cut(s) 86
TfiI GAWTC 2 cut(s) 408, 428
Tru1I TTAA 2 cut(s) 116, 483
Tru9I TTAA 2 cut(s) 116, 483
TseI GCWGC 2 cut(s) 56, 86
TspDTI ATGAA 4 cut(s) 120, 315, 353, 533
TspGWI ACGGA 1 cut(s) 426
VpaK11BI GGWCC 1 cut(s) 315
XapI RAATTY 1 cut(s) 107
XmnI GAANNNNTTC 1 cut(s) 432
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.