pycom13g29530

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr13
OG0002402
Physical Location & Seq
Reverse (-)
26541621 .. 26542259
639 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom13g29530.1

Sequence Viewer

Length: 639 bp
ATGAATGAGGAGCTACAGAGACAGCACGAGGGCATGGACAGTGCATTTTCCATAATACTCCATCTTACGGAGTTATATGGTGAAGGGACGCGCAACCGTCGCTTTAACACTGTTTGTGAACTTGTGAAGACCAAGATGGTCAAAGGGGCTCCAGTGCATCAACATGTACTGAAGATGATAGGATTCATAGAACAACTGGAGAACCTAGGTACTCCACTTGACGGGGAATTGGCCCAGGACTTTATATTGGCTTCTCTTCCTGATTCATTTTCACAGTTCGTAATGAACTACAACATGAATAAGATGGATCATACTCTCTCTGAGTTACTAAACATGTTAGTAACTGCTGAGAAAACTATGATAAAAGAGAACGTTGTAGGGACTTCTGCAGTAGCCTACAACAAGCCATCCTCTTCCAAGTCTAAGCCGCAAGGCAAAGGCAAAGGGAAGGAGAAGAAGTCACCCACTCTTAAGCCGAAAGGGGGAGTGAAGAAAAAGAAGGCAATGGAGCCCAAGGGGGCTTGCCACCACTGTGGAAAGGAGGGACATTGGAAGAGGAATTGCAGGTTATACCTTGCAACTCTTAAGGACAAGCCACAAGGTATGGTTTATGTTCTTATCTTCAATTCTAATTGTTAG
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

213

Amino Acids

23.77

Weight (kDa)

9.41

Isoelectric Point (pI)

36.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 1 - 122 1.2e-12 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 555
AccII CGCG 1 cut(s) 91
AciI CCGC 1 cut(s) 428
AclI AACGTT 1 cut(s) 372
AclWI GGATC 1 cut(s) 315
AcuI CTGAAG 1 cut(s) 191
AfaI GTAC 2 cut(s) 168, 211
AfiI CCNNNNNNNGG 3 cut(s) 67, 221, 482
AflII CTTAAG 2 cut(s) 470, 584
AflIII ACRYGT 2 cut(s) 163, 333
AgsI TTSAA 1 cut(s) 625
AjnI CCWGG 1 cut(s) 234
AleI CACNNNNGTG 1 cut(s) 531
AluBI AGCT 1 cut(s) 13
AluI AGCT 1 cut(s) 13
Alw26I GTCTC 1 cut(s) 13
AlwI GGATC 1 cut(s) 315
AoxI GGCC 1 cut(s) 231
AspA2I CCTAGG 1 cut(s) 205
AspLEI GCGC 1 cut(s) 93
AspS9I GGNCC 1 cut(s) 232
AsuHPI GGTGA 2 cut(s) 92, 453
AvrII CCTAGG 1 cut(s) 205
BanII GRGCYC 2 cut(s) 151, 513
BauI CACGAG 1 cut(s) 26
BbsI GAAGAC 1 cut(s) 134
BccI CCATC 4 cut(s) 69, 130, 298, 415
BciT130I CCWGG 1 cut(s) 236
BcoDI GTCTC 1 cut(s) 13
BfaI CTAG 1 cut(s) 206
BfmI CTRYAG 2 cut(s) 14, 387
BfrI CTTAAG 2 cut(s) 470, 584
BfuAI ACCTGC 1 cut(s) 555
BisI GCNGC 1 cut(s) 428
BlnI CCTAGG 1 cut(s) 205
BlsI GCNGC 1 cut(s) 429
Bme1390I CCNGG 1 cut(s) 236
BmgT120I GGNCC 1 cut(s) 232
BmiI GGNNCC 2 cut(s) 150, 510
BmrFI CCNGG 1 cut(s) 236
BmsI GCATC 1 cut(s) 166
BpiI GAAGAC 1 cut(s) 134
BpmI CTGGAG 2 cut(s) 135, 218
BsaJI CCNNGG 3 cut(s) 205, 234, 513
BsaXI ACNNNNNCTCC 2 cut(s) 443, 473
Bsc4I CCNNNNNNNGG 3 cut(s) 67, 221, 482
Bse1I ACTGG 2 cut(s) 152, 201
Bse3DI GCAATG 1 cut(s) 510
BseBI CCWGG 1 cut(s) 236
BseDI CCNNGG 3 cut(s) 205, 234, 513
BseGI GGATG 1 cut(s) 407
BseLI CCNNNNNNNGG 3 cut(s) 67, 221, 482
BseMI GCAATG 1 cut(s) 510
BseMII CTCAG 2 cut(s) 312, 339
BseNI ACTGG 2 cut(s) 152, 201
BseRI GAGGAG 1 cut(s) 23
Bsh1236I CGCG 1 cut(s) 91
BshFI GGCC 1 cut(s) 233
BslFI GGGAC 3 cut(s) 100, 394, 558
BslI CCNNNNNNNGG 3 cut(s) 67, 221, 482
BsmAI GTCTC 1 cut(s) 13
BsmFI GGGAC 3 cut(s) 100, 394, 558
BsnI GGCC 1 cut(s) 233
Bsp1286I GDGCHC 2 cut(s) 151, 513
Bsp143I GATC 1 cut(s) 307
BspACI CCGC 1 cut(s) 428
BspANI GGCC 1 cut(s) 233
BspCNI CTCAG 2 cut(s) 313, 340
BspFNI CGCG 1 cut(s) 91
BspLI GGNNCC 2 cut(s) 150, 510
BspMAI CTGCAG 1 cut(s) 391
BspMI ACCTGC 1 cut(s) 555
BspPI GGATC 1 cut(s) 315
BspTI CTTAAG 2 cut(s) 470, 584
BsrDI GCAATG 1 cut(s) 510
BsrI ACTGG 2 cut(s) 152, 201
BssECI CCNNGG 3 cut(s) 205, 234, 513
BssMI GATC 1 cut(s) 307
BssSI CACGAG 1 cut(s) 26
BssT1I CCWWGG 2 cut(s) 205, 513
Bst2BI CACGAG 1 cut(s) 26
Bst2UI CCWGG 1 cut(s) 236
Bst4CI ACNGT 5 cut(s) 41, 98, 112, 276, 533
Bst6I CTCTTC 3 cut(s) 261, 418, 548
BstAFI CTTAAG 2 cut(s) 470, 584
BstC8I GCNNGC 1 cut(s) 523
BstDEI CTNAG 3 cut(s) 321, 348, 423
BstF5I GGATG 1 cut(s) 407
BstFNI CGCG 1 cut(s) 91
BstHHI GCGC 1 cut(s) 93
BstKTI GATC 1 cut(s) 310
BstMAI GTCTC 1 cut(s) 13
BstMBI GATC 1 cut(s) 307
BstMWI GCNNNNNNNGC 1 cut(s) 99
BstNI CCWGG 1 cut(s) 236
BstNSI RCATGY 2 cut(s) 167, 337
BstSCI CCNGG 1 cut(s) 234
BstSFI CTRYAG 2 cut(s) 14, 387
BstUI CGCG 1 cut(s) 91
BstV2I GAAGAC 1 cut(s) 134
BstXI CCANNNNNNTGG 1 cut(s) 533
BsuRI GGCC 1 cut(s) 233
BtsCI GGATG 1 cut(s) 407
BtsIMutI CAGTG 4 cut(s) 46, 108, 159, 529
BveI ACCTGC 1 cut(s) 555
Cac8I GCNNGC 1 cut(s) 523
CfoI GCGC 1 cut(s) 93
Cfr13I GGNCC 1 cut(s) 232
CseI GACGC 1 cut(s) 97
Csp6I GTAC 2 cut(s) 167, 210
CviAII CATG 4 cut(s) 34, 164, 295, 334
CviQI GTAC 2 cut(s) 167, 210
DdeI CTNAG 3 cut(s) 321, 348, 423
DpnI GATC 1 cut(s) 309
DpnII GATC 1 cut(s) 307
Eam1104I CTCTTC 3 cut(s) 261, 418, 548
EarI CTCTTC 3 cut(s) 261, 418, 548
Eco130I CCWWGG 2 cut(s) 205, 513
Eco24I GRGCYC 2 cut(s) 151, 513
Eco57I CTGAAG 1 cut(s) 191
EcoRII CCWGG 1 cut(s) 234
EcoT14I CCWWGG 2 cut(s) 205, 513
EcoT38I GRGCYC 2 cut(s) 151, 513
ErhI CCWWGG 2 cut(s) 205, 513
FaeI CATG 4 cut(s) 37, 167, 298, 337
FaqI GGGAC 3 cut(s) 100, 394, 558
FatI CATG 4 cut(s) 33, 163, 294, 333
Fnu4HI GCNGC 1 cut(s) 428
FokI GGATG 1 cut(s) 394
FriOI GRGCYC 2 cut(s) 151, 513
Fsp4HI GCNGC 1 cut(s) 428
FspBI CTAG 1 cut(s) 206
GlaI GCGC 1 cut(s) 92
GluI GCNGC 1 cut(s) 428
GsuI CTGGAG 2 cut(s) 135, 218
HaeIII GGCC 1 cut(s) 233
HgaI GACGC 1 cut(s) 97
HhaI GCGC 1 cut(s) 93
Hin1II CATG 4 cut(s) 37, 167, 298, 337
Hin6I GCGC 1 cut(s) 91
HinP1I GCGC 1 cut(s) 91
HinfI GANTC 2 cut(s) 183, 263
HphI GGTGA 2 cut(s) 92, 453
Hpy166II GTNNAC 1 cut(s) 119
Hpy188I TCNGA 1 cut(s) 322
Hpy188III TCNNGA 1 cut(s) 260
Hpy8I GTNNAC 1 cut(s) 119
Hpy99I CGWCG 1 cut(s) 102
HpyAV CCTTC 3 cut(s) 77, 442, 493
HpyCH4III ACNGT 5 cut(s) 41, 98, 112, 276, 533
HpyCH4IV ACGT 1 cut(s) 372
HpyCH4V TGCA 5 cut(s) 44, 157, 389, 564, 578
HpyF10VI GCNNNNNNNGC 1 cut(s) 99
HpyF3I CTNAG 3 cut(s) 321, 348, 423
HpySE526I ACGT 1 cut(s) 372
Hsp92II CATG 4 cut(s) 37, 167, 298, 337
HspAI GCGC 1 cut(s) 91
Kzo9I GATC 1 cut(s) 307
LmnI GCTCC 3 cut(s) 10, 154, 508
LpnPI CCDG 6 cut(s) 165, 182, 221, 248, 273, 550
LweI GCATC 1 cut(s) 166
MaeI CTAG 1 cut(s) 206
MaeII ACGT 1 cut(s) 372
MaeIII GTNAC 3 cut(s) 324, 340, 459
MalI GATC 1 cut(s) 309
MboI GATC 1 cut(s) 307
MboII GAAGA 8 cut(s) 139, 184, 248, 405, 466, 502, 565, 613
MhlI GDGCHC 2 cut(s) 151, 513
MluCI AATT 4 cut(s) 227, 559, 625, 631
MnlI CCTC 4 cut(s) 22, 421, 535, 549
MseI TTAA 3 cut(s) 105, 471, 585
MslI CAYNNNNRTG 2 cut(s) 162, 531
MspCI CTTAAG 2 cut(s) 470, 584
MspR9I CCNGG 1 cut(s) 236
MvaI CCWGG 1 cut(s) 236
MvnI CGCG 1 cut(s) 91
MwoI GCNNNNNNNGC 1 cut(s) 99
NdeII GATC 1 cut(s) 307
NlaIII CATG 4 cut(s) 37, 167, 298, 337
NlaIV GGNNCC 2 cut(s) 150, 510
NmuCI GTSAC 1 cut(s) 459
NspI RCATGY 2 cut(s) 167, 337
OliI CACNNNNGTG 1 cut(s) 531
PciI ACATGT 2 cut(s) 163, 333
PfeI GAWTC 2 cut(s) 183, 263
PkrI GCNGC 1 cut(s) 429
PscI ACATGT 2 cut(s) 163, 333
Psp1406I AACGTT 1 cut(s) 372
Psp6I CCWGG 1 cut(s) 234
PspGI CCWGG 1 cut(s) 234
PspN4I GGNNCC 2 cut(s) 150, 510
PspPI GGNCC 1 cut(s) 232
PstI CTGCAG 1 cut(s) 391
RsaI GTAC 2 cut(s) 168, 211
RsaNI GTAC 2 cut(s) 167, 210
RseI CAYNNNNRTG 2 cut(s) 162, 531
SaqAI TTAA 3 cut(s) 105, 471, 585
SatI GCNGC 1 cut(s) 428
Sau3AI GATC 1 cut(s) 307
Sau96I GGNCC 1 cut(s) 232
ScrFI CCNGG 1 cut(s) 236
SduI GDGCHC 2 cut(s) 151, 513
SetI ASST 7 cut(s) 15, 207, 211, 375, 569, 576, 604
SfaNI GCATC 1 cut(s) 166
SfcI CTRYAG 2 cut(s) 14, 387
SmiMI CAYNNNNRTG 2 cut(s) 162, 531
SmlI CTYRAG 2 cut(s) 470, 584
SmoI CTYRAG 2 cut(s) 470, 584
Sse9I AATT 4 cut(s) 227, 559, 625, 631
SsiI CCGC 1 cut(s) 428
SspMI CTAG 1 cut(s) 206
StyD4I CCNGG 1 cut(s) 234
StyI CCWWGG 2 cut(s) 205, 513
TaaI ACNGT 5 cut(s) 41, 98, 112, 276, 533
TaiI ACGT 1 cut(s) 375
TasI AATT 4 cut(s) 227, 559, 625, 631
TatI WGTACW 1 cut(s) 166
TauI GCSGC 1 cut(s) 430
TfiI GAWTC 2 cut(s) 183, 263
Tru1I TTAA 3 cut(s) 105, 471, 585
Tru9I TTAA 3 cut(s) 105, 471, 585
TscAI CASTG 4 cut(s) 46, 115, 159, 536
TseFI GTSAC 1 cut(s) 459
Tsp45I GTSAC 1 cut(s) 459
TspDTI ATGAA 5 cut(s) 17, 175, 255, 299, 311
TspGWI ACGGA 1 cut(s) 83
TspRI CASTG 4 cut(s) 46, 115, 159, 536
Vha464I CTTAAG 2 cut(s) 470, 584
XceI RCATGY 2 cut(s) 167, 337
XmaJI CCTAGG 1 cut(s) 205
XspI CTAG 1 cut(s) 206
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.