pycom14g08550

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr14
OG0000437
Physical Location & Seq
Forward (+)
9490258 .. 9490665
408 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom14g08550.1

Sequence Viewer

Length: 408 bp
ATGGCCGTGGACAACCGGACACTCAAGGAGCTTTCTGCTTCGGGATTGGATAATGCCACACCTTTGTGTATCCAATATCCCCCGCCTGCCCAAGGGAAGACCGAAGAGTTCGAGTTGAAGTCAAGTTTGCTCCACCATATTCCGAAATACCATGGGTTATCCATGGAGGATCCGAACAAGCATCTGAAAGAATTTGAAGTGGTGTGTTCAAGCATGACTCCCATCAACGTCGATGGAAGTATTTTGAAGATGAAGGCTTTTCCATTCTCTCTAATGGACAAAGCCAAAGATTGGTTGTACGAATTAGCTCCCGGAACCGTCACATCATGGGAGAGTATGAAGAGGGCATTTCTGGAGAAGTTTTTCCCAACTTCTAGAATCATCCTTCTACTTAAAAGGATAAGTTGA
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

136

Amino Acids

15.31

Weight (kDa)

7.78

Isoelectric Point (pI)

39.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 85 - 130 2.2e-06 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)
AccB7I CCANNNNNTGG 1 cut(s) 291
AciI CCGC 1 cut(s) 83
AclWI GGATC 2 cut(s) 164, 177
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 1 cut(s) 191
AfaI GTAC 1 cut(s) 299
AfiI CCNNNNNNNGG 2 cut(s) 92, 291
AgsI TTSAA 4 cut(s) 118, 197, 210, 247
AleI CACNNNNGTG 1 cut(s) 64
AluBI AGCT 2 cut(s) 31, 308
AluI AGCT 2 cut(s) 31, 308
AlwI GGATC 2 cut(s) 164, 177
AoxI GGCC 1 cut(s) 3
ApoI RAATTY 1 cut(s) 191
Asp700I GAANNNNTTC 1 cut(s) 362
AsuC2I CCSGG 1 cut(s) 312
BamHI GGATCC 1 cut(s) 169
BbsI GAAGAC 1 cut(s) 104
BccI CCATC 2 cut(s) 227, 230
BciVI GTATCC 1 cut(s) 80
BcnI CCSGG 1 cut(s) 312
BfaI CTAG 1 cut(s) 375
BfuI GTATCC 1 cut(s) 80
Bme1390I CCNGG 1 cut(s) 312
BmiI GGNNCC 2 cut(s) 171, 316
BmrFI CCNGG 1 cut(s) 312
BmsI GCATC 1 cut(s) 190
BpiI GAAGAC 1 cut(s) 104
BpmI CTGGAG 1 cut(s) 374
BpuEI CTTGAG 1 cut(s) 8
BpuMI CCSGG 1 cut(s) 312
BsaJI CCNNGG 4 cut(s) 6, 91, 151, 162
BsaWI WCCGGW 1 cut(s) 15
Bsc4I CCNNNNNNNGG 2 cut(s) 92, 291
BseDI CCNNGG 4 cut(s) 6, 91, 151, 162
BseGI GGATG 1 cut(s) 381
BseLI CCNNNNNNNGG 2 cut(s) 92, 291
BshFI GGCC 1 cut(s) 5
BsiSI CCGG 2 cut(s) 16, 312
BslI CCNNNNNNNGG 2 cut(s) 92, 291
BsnI GGCC 1 cut(s) 5
Bsp143I GATC 1 cut(s) 169
Bsp19I CCATGG 2 cut(s) 151, 162
BspACI CCGC 1 cut(s) 83
BspANI GGCC 1 cut(s) 5
BspLI GGNNCC 2 cut(s) 171, 316
BspPI GGATC 2 cut(s) 164, 177
BssECI CCNNGG 4 cut(s) 6, 91, 151, 162
BssMI GATC 1 cut(s) 169
BssT1I CCWWGG 3 cut(s) 91, 151, 162
Bst4CI ACNGT 1 cut(s) 319
Bst6I CTCTTC 2 cut(s) 99, 335
BstC8I GCNNGC 1 cut(s) 87
BstDSI CCRYGG 3 cut(s) 6, 151, 162
BstENI CCTNNNNNAGG 1 cut(s) 90
BstF5I GGATG 1 cut(s) 381
BstKTI GATC 1 cut(s) 172
BstMBI GATC 1 cut(s) 169
BstSCI CCNGG 1 cut(s) 310
BstV2I GAAGAC 1 cut(s) 104
BstX2I RGATCY 1 cut(s) 169
BstYI RGATCY 1 cut(s) 169
BsuI GTATCC 1 cut(s) 80
BsuRI GGCC 1 cut(s) 5
BtgI CCRYGG 3 cut(s) 6, 151, 162
BtsCI GGATG 1 cut(s) 381
Cac8I GCNNGC 1 cut(s) 87
Csp6I GTAC 1 cut(s) 298
CviAII CATG 4 cut(s) 152, 163, 214, 327
CviJI RGCY 5 cut(s) 5, 31, 257, 284, 308
CviKI_1 RGCY 5 cut(s) 5, 31, 257, 284, 308
CviQI GTAC 1 cut(s) 298
DpnI GATC 1 cut(s) 171
DpnII GATC 1 cut(s) 169
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 2 cut(s) 99, 335
EarI CTCTTC 2 cut(s) 99, 335
Eco130I CCWWGG 3 cut(s) 91, 151, 162
EcoNI CCTNNNNNAGG 1 cut(s) 90
EcoT14I CCWWGG 3 cut(s) 91, 151, 162
ErhI CCWWGG 3 cut(s) 91, 151, 162
FaeI CATG 4 cut(s) 155, 166, 217, 330
FaiI YATR 6 cut(s) 138, 153, 164, 215, 328, 338
FatI CATG 4 cut(s) 151, 162, 213, 326
FauI CCCGC 1 cut(s) 90
FokI GGATG 1 cut(s) 368
FspBI CTAG 1 cut(s) 375
GsuI CTGGAG 1 cut(s) 374
HaeIII GGCC 1 cut(s) 5
HapII CCGG 2 cut(s) 16, 312
Hin1II CATG 4 cut(s) 155, 166, 217, 330
HinfI GANTC 2 cut(s) 217, 378
HpaII CCGG 2 cut(s) 16, 312
Hpy166II GTNNAC 1 cut(s) 10
Hpy188I TCNGA 3 cut(s) 144, 174, 186
Hpy188III TCNNGA 3 cut(s) 42, 353, 375
Hpy8I GTNNAC 1 cut(s) 10
Hpy99I CGWCG 1 cut(s) 233
HpyAV CCTTC 2 cut(s) 247, 395
HpyCH4III ACNGT 1 cut(s) 319
HpyCH4IV ACGT 1 cut(s) 228
HpySE526I ACGT 1 cut(s) 228
Hsp92II CATG 4 cut(s) 155, 166, 217, 330
Kzo9I GATC 1 cut(s) 169
LmnI GCTCC 3 cut(s) 28, 135, 313
LpnPI CCDG 4 cut(s) 29, 99, 325, 338
LweI GCATC 1 cut(s) 190
MaeI CTAG 1 cut(s) 375
MaeII ACGT 1 cut(s) 228
MaeIII GTNAC 1 cut(s) 319
MalI GATC 1 cut(s) 171
MboI GATC 1 cut(s) 169
MboII GAAGA 4 cut(s) 109, 116, 259, 352
MflI RGATCY 1 cut(s) 169
MluCI AATT 2 cut(s) 191, 302
MlyI GAGTC 1 cut(s) 211
MnlI CCTC 2 cut(s) 160, 336
MroXI GAANNNNTTC 1 cut(s) 362
MseI TTAA 1 cut(s) 393
MslI CAYNNNNRTG 1 cut(s) 64
MspI CCGG 2 cut(s) 16, 312
MspR9I CCNGG 1 cut(s) 312
NciI CCSGG 1 cut(s) 312
NcoI CCATGG 2 cut(s) 151, 162
NdeII GATC 1 cut(s) 169
NlaIII CATG 4 cut(s) 155, 166, 217, 330
NlaIV GGNNCC 2 cut(s) 171, 316
NmuCI GTSAC 1 cut(s) 319
OliI CACNNNNGTG 1 cut(s) 64
PdmI GAANNNNTTC 1 cut(s) 362
PfeI GAWTC 1 cut(s) 378
PflMI CCANNNNNTGG 1 cut(s) 291
PfoI TCCNGGA 1 cut(s) 310
PleI GAGTC 1 cut(s) 211
PpsI GAGTC 1 cut(s) 211
PspN4I GGNNCC 2 cut(s) 171, 316
PsuI RGATCY 1 cut(s) 169
RsaI GTAC 1 cut(s) 299
RsaNI GTAC 1 cut(s) 298
RseI CAYNNNNRTG 1 cut(s) 64
SaqAI TTAA 1 cut(s) 393
Sau3AI GATC 1 cut(s) 169
SchI GAGTC 1 cut(s) 211
ScrFI CCNGG 1 cut(s) 312
SetI ASST 4 cut(s) 33, 64, 231, 310
SfaNI GCATC 1 cut(s) 190
SmiMI CAYNNNNRTG 1 cut(s) 64
SmlI CTYRAG 1 cut(s) 23
SmoI CTYRAG 1 cut(s) 23
Sse9I AATT 2 cut(s) 191, 302
SsiI CCGC 1 cut(s) 83
SspMI CTAG 1 cut(s) 375
StyD4I CCNGG 1 cut(s) 310
StyI CCWWGG 3 cut(s) 91, 151, 162
TaaI ACNGT 1 cut(s) 319
TaiI ACGT 1 cut(s) 231
TaqI TCGA 2 cut(s) 111, 231
TaqII GACCGA 1 cut(s) 116
TasI AATT 2 cut(s) 191, 302
TfiI GAWTC 1 cut(s) 378
Tru1I TTAA 1 cut(s) 393
Tru9I TTAA 1 cut(s) 393
TseFI GTSAC 1 cut(s) 319
Tsp45I GTSAC 1 cut(s) 319
TspDTI ATGAA 2 cut(s) 266, 353
Van91I CCANNNNNTGG 1 cut(s) 291
XagI CCTNNNNNAGG 1 cut(s) 90
XapI RAATTY 1 cut(s) 191
XbaI TCTAGA 1 cut(s) 374
XmnI GAANNNNTTC 1 cut(s) 362
XspI CTAG 1 cut(s) 375
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.