pycom11g02000

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr11
OG0000562
Physical Location & Seq
Reverse (-)
1726571 .. 1726978
408 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom11g02000.1

Sequence Viewer

Length: 408 bp
ATGAAAAGCATGTGGAATGAATTAGAAACATATCGTCCTCATACGATCGATGCTGCTGTGATTCGCAAACGAGCAGAAGAAGACAAGATATTTCAACTTCTGTCTAGTCTCGATTCGGAATATGAAGATCTACGAAGTCACATACTCATGAACTCTGAACTCCCTTCCTTCACCAGTGTATGTGCAACAATCCAACGTGAAGAAGTGAGGAGGAAGGTCATGAACATGAGTACAAAGGCTAGTGTACCTGATGCCAGGGCGTACCTGACCAACGAGAGGAAGTACAAGGGAAAGCACCCACATTTGAAATGTCAACACTGTAACTATATCGGTCATGTCAAGGAAATGTGCTGGATTTTACATCCAGAATTAAAACCGGACTTCATGAAGGACAACAAGGGTACATAA
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_2 Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs rve

Protein Analysis

136

Amino Acids

15.9

Weight (kDa)

8.66

Isoelectric Point (pI)

42.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 26 - 74 3.6e-06 gag-polypeptide of LTR copia-type
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: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfaI GTAC 5 cut(s) 232, 246, 263, 284, 403
AfiI CCNNNNNNNGG 1 cut(s) 276
AgsI TTSAA 2 cut(s) 95, 307
AjnI CCWGG 1 cut(s) 254
Alw26I GTCTC 1 cut(s) 113
ApeKI GCWGC 1 cut(s) 53
AsuHPI GGTGA 1 cut(s) 163
BbsI GAAGAC 1 cut(s) 87
BbvI GCAGC 1 cut(s) 40
BciT130I CCWGG 1 cut(s) 256
BcoDI GTCTC 1 cut(s) 113
BfaI CTAG 2 cut(s) 105, 240
BglII AGATCT 1 cut(s) 127
BisI GCNGC 1 cut(s) 54
BlsI GCNGC 1 cut(s) 55
Bme1390I CCNGG 1 cut(s) 256
BmrFI CCNGG 1 cut(s) 256
BmsI GCATC 2 cut(s) 40, 241
BpiI GAAGAC 1 cut(s) 87
Bsa29I ATCGAT 1 cut(s) 48
BsaJI CCNNGG 1 cut(s) 255
BsaWI WCCGGW 1 cut(s) 376
Bsc4I CCNNNNNNNGG 1 cut(s) 276
Bse1I ACTGG 1 cut(s) 174
BseBI CCWGG 1 cut(s) 256
BseCI ATCGAT 1 cut(s) 48
BseDI CCNNGG 1 cut(s) 255
BseGI GGATG 1 cut(s) 361
BseLI CCNNNNNNNGG 1 cut(s) 276
BseNI ACTGG 1 cut(s) 174
BseRI GAGGAG 1 cut(s) 223
BseXI GCAGC 1 cut(s) 40
Bsh1285I CGRYCG 1 cut(s) 48
BshVI ATCGAT 1 cut(s) 48
BsiEI CGRYCG 1 cut(s) 48
BsiSI CCGG 1 cut(s) 377
BslI CCNNNNNNNGG 1 cut(s) 276
BsmAI GTCTC 1 cut(s) 113
Bsp143I GATC 2 cut(s) 45, 127
BspDI ATCGAT 1 cut(s) 48
BspHI TCATGA 3 cut(s) 147, 219, 384
BsrI ACTGG 1 cut(s) 174
BssECI CCNNGG 1 cut(s) 255
BssMI GATC 2 cut(s) 45, 127
Bst2UI CCWGG 1 cut(s) 256
Bst4CI ACNGT 1 cut(s) 320
BstF5I GGATG 1 cut(s) 361
BstKTI GATC 2 cut(s) 48, 130
BstMAI GTCTC 1 cut(s) 113
BstMBI GATC 2 cut(s) 45, 127
BstMCI CGRYCG 1 cut(s) 48
BstNI CCWGG 1 cut(s) 256
BstNSI RCATGY 1 cut(s) 13
BstSCI CCNGG 1 cut(s) 254
BstV1I GCAGC 1 cut(s) 40
BstV2I GAAGAC 1 cut(s) 87
BstX2I RGATCY 1 cut(s) 127
BstYI RGATCY 1 cut(s) 127
Bsu15I ATCGAT 1 cut(s) 48
BsuTUI ATCGAT 1 cut(s) 48
BtsCI GGATG 1 cut(s) 361
BtsIMutI CAGTG 2 cut(s) 181, 316
CciI TCATGA 3 cut(s) 147, 219, 384
ClaI ATCGAT 1 cut(s) 48
Csp6I GTAC 5 cut(s) 231, 245, 262, 283, 402
CviAII CATG 6 cut(s) 10, 148, 220, 226, 335, 385
CviJI RGCY 1 cut(s) 239
CviKI_1 RGCY 1 cut(s) 239
CviQI GTAC 5 cut(s) 231, 245, 262, 283, 402
DpnI GATC 2 cut(s) 47, 129
DpnII GATC 2 cut(s) 45, 127
EcoRII CCWGG 1 cut(s) 254
FaeI CATG 6 cut(s) 13, 151, 223, 229, 338, 388
FatI CATG 6 cut(s) 9, 147, 219, 225, 334, 384
Fnu4HI GCNGC 1 cut(s) 54
FokI GGATG 1 cut(s) 348
Fsp4HI GCNGC 1 cut(s) 54
FspBI CTAG 2 cut(s) 105, 240
GluI GCNGC 1 cut(s) 54
HapII CCGG 1 cut(s) 377
Hin1II CATG 6 cut(s) 13, 151, 223, 229, 338, 388
HincII GTYRAC 1 cut(s) 314
HindII GTYRAC 1 cut(s) 314
HinfI GANTC 2 cut(s) 61, 113
HpaII CCGG 1 cut(s) 377
HphI GGTGA 1 cut(s) 163
Hpy166II GTNNAC 2 cut(s) 245, 314
Hpy188I TCNGA 2 cut(s) 118, 157
Hpy188III TCNNGA 5 cut(s) 110, 148, 220, 365, 385
Hpy8I GTNNAC 2 cut(s) 245, 314
HpyAV CCTTC 4 cut(s) 174, 178, 208, 382
HpyCH4III ACNGT 1 cut(s) 320
HpyCH4IV ACGT 1 cut(s) 196
HpyCH4V TGCA 1 cut(s) 185
HpySE526I ACGT 1 cut(s) 196
Hsp92II CATG 6 cut(s) 13, 151, 223, 229, 338, 388
Kzo9I GATC 2 cut(s) 45, 127
LpnPI CCDG 8 cut(s) 187, 241, 261, 268, 278, 337, 378, 390
Lsp1109I GCAGC 1 cut(s) 40
LweI GCATC 2 cut(s) 40, 241
MaeI CTAG 2 cut(s) 105, 240
MaeII ACGT 1 cut(s) 196
MaeIII GTNAC 2 cut(s) 137, 320
MalI GATC 2 cut(s) 47, 129
MboI GATC 2 cut(s) 45, 127
MboII GAAGA 4 cut(s) 89, 92, 137, 212
MflI RGATCY 1 cut(s) 127
MluCI AATT 2 cut(s) 20, 368
MmeI TCCRAC 1 cut(s) 217
MnlI CCTC 4 cut(s) 48, 201, 204, 270
MseI TTAA 1 cut(s) 371
MslI CAYNNNNRTG 2 cut(s) 146, 224
MspI CCGG 1 cut(s) 377
MspR9I CCNGG 1 cut(s) 256
MvaI CCWGG 1 cut(s) 256
NdeII GATC 2 cut(s) 45, 127
NlaIII CATG 6 cut(s) 13, 151, 223, 229, 338, 388
NmuCI GTSAC 1 cut(s) 137
NspI RCATGY 1 cut(s) 13
PagI TCATGA 3 cut(s) 147, 219, 384
PfeI GAWTC 2 cut(s) 61, 113
PkrI GCNGC 1 cut(s) 55
Ple19I CGATCG 1 cut(s) 48
Psp6I CCWGG 1 cut(s) 254
PspGI CCWGG 1 cut(s) 254
PsuI RGATCY 1 cut(s) 127
PvuI CGATCG 1 cut(s) 48
RsaI GTAC 5 cut(s) 232, 246, 263, 284, 403
RsaNI GTAC 5 cut(s) 231, 245, 262, 283, 402
RseI CAYNNNNRTG 2 cut(s) 146, 224
SaqAI TTAA 1 cut(s) 371
SatI GCNGC 1 cut(s) 54
Sau3AI GATC 2 cut(s) 45, 127
ScrFI CCNGG 1 cut(s) 256
SetI ASST 4 cut(s) 199, 219, 250, 267
SfaNI GCATC 2 cut(s) 40, 241
SmiMI CAYNNNNRTG 2 cut(s) 146, 224
Sse9I AATT 2 cut(s) 20, 368
SspMI CTAG 2 cut(s) 105, 240
StyD4I CCNGG 1 cut(s) 254
TaaI ACNGT 1 cut(s) 320
TaiI ACGT 1 cut(s) 199
TaqI TCGA 2 cut(s) 48, 111
TaqII GACCGA 1 cut(s) 320
TasI AATT 2 cut(s) 20, 368
TatI WGTACW 2 cut(s) 230, 282
TfiI GAWTC 2 cut(s) 61, 113
Tru1I TTAA 1 cut(s) 371
Tru9I TTAA 1 cut(s) 371
TscAI CASTG 2 cut(s) 181, 323
TseFI GTSAC 1 cut(s) 137
TseI GCWGC 1 cut(s) 53
Tsp45I GTSAC 1 cut(s) 137
TspDTI ATGAA 7 cut(s) 17, 33, 138, 164, 236, 373, 401
TspRI CASTG 2 cut(s) 181, 323
XceI RCATGY 1 cut(s) 13
XspI CTAG 2 cut(s) 105, 240
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.