pycom17g02500

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr17
OG0002402
Physical Location & Seq
Forward (+)
1633968 .. 1634852
885 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom17g02500.1

Sequence Viewer

Length: 762 bp
ATGTATTTAGATATGGTTGGAAGCACGTTCGCGAAAATACTCGACAAACATTGCCTAGAGGGGCATAATTTCCCAACCTGGTATCGTAATGTCAAGATTCTCCTAACATTGGAGAAGATCATTTACGTACTTGACAAGCCTCTTCCTGACATACCTCTTGGCCCTGAGGCCACAGAGGATGAACGTGCTAAGTATGACAAGCACGTTGAGGATGATACACAAGCCAAGTGCTATCTGTTGGCTTCTATGAATGAGGAGCTACAGAGACAGCACGAGGGCATGGACAGTGCATTTTCCATAATACTCCATCTTACGGAGTTATATGGTGAAGGGACGCGCAACCGTCGCTTTAACACTGTTTGTGAACTTGTGAAGACCAAGATGGTCAAAGGGGCTCCATTCGTAATGAACTACAACATGAATAAGATGGATCATACTCTCTCTGAGTTACTAAACATGTTAGTAACTGCTGAGAAAACTATGATGAAAGAGAACGTTGTAGGGACTTCTGCAGTAGCCTACAACAAGCCATCCTCTTCCAAGTCTAAGCCGCAAGGCAAAGGCAAAGGGAAGGAGAAGAAGTCACCCACTCTTAAGCCGAAAGGGGGAGTGAAGAAAAAGAAGGCAATGGAGCCCAAGGGGGCTTGCCACCACTATGGAAAGGAGGGACATTGGAAGAGGAATTGCAGGTTATACCTTGCAACTCTTAAGGACAAGCCACAAGGTATGGTTTATGTTCTTATCTTCAATTCTAATTGTTAG
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

Protein Analysis

254

Amino Acids

28.78

Weight (kDa)

9.28

Isoelectric Point (pI)

33.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 56 - 167 5.9e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 678
AccII CGCG 2 cut(s) 32, 337
AciI CCGC 1 cut(s) 551
AclI AACGTT 1 cut(s) 495
AclWI GGATC 1 cut(s) 438
AfaI GTAC 1 cut(s) 129
AfiI CCNNNNNNNGG 3 cut(s) 109, 313, 605
AflII CTTAAG 2 cut(s) 593, 707
AflIII ACRYGT 1 cut(s) 456
AgsI TTSAA 1 cut(s) 748
AjnI CCWGG 1 cut(s) 77
AluBI AGCT 1 cut(s) 259
AluI AGCT 1 cut(s) 259
Alw26I GTCTC 1 cut(s) 259
AlwI GGATC 1 cut(s) 438
AoxI GGCC 2 cut(s) 160, 168
AspLEI GCGC 1 cut(s) 339
AspS9I GGNCC 1 cut(s) 161
AsuHPI GGTGA 2 cut(s) 338, 576
AxyI CCTNAGG 1 cut(s) 165
BanII GRGCYC 2 cut(s) 397, 636
BarI GAAGNNNNNNTAC 2 cut(s) 107, 139
BauI CACGAG 1 cut(s) 272
BbsI GAAGAC 1 cut(s) 380
BccI CCATC 4 cut(s) 315, 376, 421, 538
BciT130I CCWGG 1 cut(s) 79
BcoDI GTCTC 1 cut(s) 259
BfaI CTAG 1 cut(s) 56
BfmI CTRYAG 2 cut(s) 260, 510
BfrI CTTAAG 2 cut(s) 593, 707
BfuAI ACCTGC 1 cut(s) 678
BisI GCNGC 1 cut(s) 551
BlsI GCNGC 1 cut(s) 552
Bme1390I CCNGG 1 cut(s) 79
BmgT120I GGNCC 1 cut(s) 161
BmiI GGNNCC 2 cut(s) 396, 633
BmrFI CCNGG 1 cut(s) 79
BpiI GAAGAC 1 cut(s) 380
BsaAI YACGTR 1 cut(s) 127
BsaJI CCNNGG 1 cut(s) 636
BsaXI ACNNNNNCTCC 2 cut(s) 566, 596
Bsc4I CCNNNNNNNGG 3 cut(s) 109, 313, 605
Bse21I CCTNAGG 1 cut(s) 165
Bse3DI GCAATG 2 cut(s) 49, 633
BseBI CCWGG 1 cut(s) 79
BseDI CCNNGG 1 cut(s) 636
BseGI GGATG 3 cut(s) 184, 217, 530
BseLI CCNNNNNNNGG 3 cut(s) 109, 313, 605
BseMI GCAATG 2 cut(s) 49, 633
BseMII CTCAG 3 cut(s) 156, 435, 462
BseRI GAGGAG 1 cut(s) 269
Bsh1236I CGCG 2 cut(s) 32, 337
BshFI GGCC 2 cut(s) 162, 170
BslFI GGGAC 3 cut(s) 346, 517, 681
BslI CCNNNNNNNGG 3 cut(s) 109, 313, 605
BsmAI GTCTC 1 cut(s) 259
BsmFI GGGAC 3 cut(s) 346, 517, 681
BsnI GGCC 2 cut(s) 162, 170
Bsp1286I GDGCHC 2 cut(s) 397, 636
Bsp143I GATC 2 cut(s) 117, 430
Bsp68I TCGCGA 1 cut(s) 32
BspACI CCGC 1 cut(s) 551
BspANI GGCC 2 cut(s) 162, 170
BspCNI CTCAG 3 cut(s) 157, 436, 463
BspFNI CGCG 2 cut(s) 32, 337
BspLI GGNNCC 2 cut(s) 396, 633
BspMAI CTGCAG 1 cut(s) 514
BspMI ACCTGC 1 cut(s) 678
BspPI GGATC 1 cut(s) 438
BspTI CTTAAG 2 cut(s) 593, 707
BsrDI GCAATG 2 cut(s) 49, 633
BssECI CCNNGG 1 cut(s) 636
BssMI GATC 2 cut(s) 117, 430
BssSI CACGAG 1 cut(s) 272
BssT1I CCWWGG 1 cut(s) 636
Bst2BI CACGAG 1 cut(s) 272
Bst2UI CCWGG 1 cut(s) 79
Bst4CI ACNGT 3 cut(s) 287, 344, 358
Bst6I CTCTTC 3 cut(s) 147, 541, 671
BstAFI CTTAAG 2 cut(s) 593, 707
BstBAI YACGTR 1 cut(s) 127
BstC8I GCNNGC 1 cut(s) 646
BstDEI CTNAG 5 cut(s) 165, 189, 444, 471, 546
BstF5I GGATG 3 cut(s) 184, 217, 530
BstFNI CGCG 2 cut(s) 32, 337
BstHHI GCGC 1 cut(s) 339
BstKTI GATC 2 cut(s) 120, 433
BstMAI GTCTC 1 cut(s) 259
BstMBI GATC 2 cut(s) 117, 430
BstMWI GCNNNNNNNGC 1 cut(s) 345
BstNI CCWGG 1 cut(s) 79
BstNSI RCATGY 1 cut(s) 460
BstSCI CCNGG 1 cut(s) 77
BstSFI CTRYAG 2 cut(s) 260, 510
BstSNI TACGTA 1 cut(s) 127
BstUI CGCG 2 cut(s) 32, 337
BstV2I GAAGAC 1 cut(s) 380
BstXI CCANNNNNNTGG 1 cut(s) 656
Bsu36I CCTNAGG 1 cut(s) 165
BsuRI GGCC 2 cut(s) 162, 170
BtsCI GGATG 3 cut(s) 184, 217, 530
BtsIMutI CAGTG 2 cut(s) 292, 354
BtuMI TCGCGA 1 cut(s) 32
BveI ACCTGC 1 cut(s) 678
Cac8I GCNNGC 1 cut(s) 646
CfoI GCGC 1 cut(s) 339
Cfr13I GGNCC 1 cut(s) 161
CseI GACGC 1 cut(s) 343
CsiI ACCWGGT 1 cut(s) 77
Csp6I GTAC 1 cut(s) 128
CviAII CATG 3 cut(s) 280, 418, 457
CviQI GTAC 1 cut(s) 128
DdeI CTNAG 5 cut(s) 165, 189, 444, 471, 546
DpnI GATC 2 cut(s) 119, 432
DpnII GATC 2 cut(s) 117, 430
Eam1104I CTCTTC 3 cut(s) 147, 541, 671
EarI CTCTTC 3 cut(s) 147, 541, 671
Eco105I TACGTA 1 cut(s) 127
Eco130I CCWWGG 1 cut(s) 636
Eco24I GRGCYC 2 cut(s) 397, 636
Eco81I CCTNAGG 1 cut(s) 165
EcoRII CCWGG 1 cut(s) 77
EcoT14I CCWWGG 1 cut(s) 636
EcoT38I GRGCYC 2 cut(s) 397, 636
ErhI CCWWGG 1 cut(s) 636
FaeI CATG 3 cut(s) 283, 421, 460
FaqI GGGAC 3 cut(s) 346, 517, 681
FatI CATG 3 cut(s) 279, 417, 456
Fnu4HI GCNGC 1 cut(s) 551
FokI GGATG 3 cut(s) 191, 224, 517
FriOI GRGCYC 2 cut(s) 397, 636
Fsp4HI GCNGC 1 cut(s) 551
FspBI CTAG 1 cut(s) 56
GlaI GCGC 1 cut(s) 338
GluI GCNGC 1 cut(s) 551
HaeIII GGCC 2 cut(s) 162, 170
HgaI GACGC 1 cut(s) 343
HhaI GCGC 1 cut(s) 339
Hin1II CATG 3 cut(s) 283, 421, 460
Hin6I GCGC 1 cut(s) 337
HinP1I GCGC 1 cut(s) 337
HinfI GANTC 1 cut(s) 97
HphI GGTGA 2 cut(s) 338, 576
Hpy166II GTNNAC 1 cut(s) 365
Hpy188I TCNGA 1 cut(s) 445
Hpy188III TCNNGA 3 cut(s) 31, 94, 146
Hpy8I GTNNAC 1 cut(s) 365
Hpy99I CGWCG 1 cut(s) 348
HpyAV CCTTC 3 cut(s) 323, 565, 616
HpyCH4III ACNGT 3 cut(s) 287, 344, 358
HpyCH4IV ACGT 5 cut(s) 26, 126, 184, 204, 495
HpyCH4V TGCA 4 cut(s) 290, 512, 687, 701
HpyF10VI GCNNNNNNNGC 1 cut(s) 345
HpyF3I CTNAG 5 cut(s) 165, 189, 444, 471, 546
HpySE526I ACGT 5 cut(s) 26, 126, 184, 204, 495
Hsp92II CATG 3 cut(s) 283, 421, 460
HspAI GCGC 1 cut(s) 337
Kzo9I GATC 2 cut(s) 117, 430
LmnI GCTCC 3 cut(s) 256, 400, 631
LpnPI CCDG 5 cut(s) 64, 91, 159, 177, 673
MabI ACCWGGT 1 cut(s) 77
MaeI CTAG 1 cut(s) 56
MaeII ACGT 5 cut(s) 26, 126, 184, 204, 495
MaeIII GTNAC 3 cut(s) 447, 463, 582
MalI GATC 2 cut(s) 119, 432
MboI GATC 2 cut(s) 117, 430
MboII GAAGA 8 cut(s) 127, 134, 385, 528, 589, 625, 688, 736
MhlI GDGCHC 2 cut(s) 397, 636
MluCI AATT 4 cut(s) 67, 682, 748, 754
MseI TTAA 3 cut(s) 351, 594, 708
MslI CAYNNNNRTG 1 cut(s) 654
MspCI CTTAAG 2 cut(s) 593, 707
MspR9I CCNGG 1 cut(s) 79
MvaI CCWGG 1 cut(s) 79
MvnI CGCG 2 cut(s) 32, 337
MwoI GCNNNNNNNGC 1 cut(s) 345
NdeII GATC 2 cut(s) 117, 430
NlaIII CATG 3 cut(s) 283, 421, 460
NlaIV GGNNCC 2 cut(s) 396, 633
NmuCI GTSAC 1 cut(s) 582
NruI TCGCGA 1 cut(s) 32
NspI RCATGY 1 cut(s) 460
PciI ACATGT 1 cut(s) 456
PfeI GAWTC 1 cut(s) 97
PkrI GCNGC 1 cut(s) 552
Ppu21I YACGTR 1 cut(s) 127
PscI ACATGT 1 cut(s) 456
Psp1406I AACGTT 1 cut(s) 495
Psp6I CCWGG 1 cut(s) 77
PspGI CCWGG 1 cut(s) 77
PspN4I GGNNCC 2 cut(s) 396, 633
PspPI GGNCC 1 cut(s) 161
PstI CTGCAG 1 cut(s) 514
RruI TCGCGA 1 cut(s) 32
RsaI GTAC 1 cut(s) 129
RsaNI GTAC 1 cut(s) 128
RseI CAYNNNNRTG 1 cut(s) 654
SaqAI TTAA 3 cut(s) 351, 594, 708
SatI GCNGC 1 cut(s) 551
Sau3AI GATC 2 cut(s) 117, 430
Sau96I GGNCC 1 cut(s) 161
ScrFI CCNGG 1 cut(s) 79
SduI GDGCHC 2 cut(s) 397, 636
SexAI ACCWGGT 1 cut(s) 77
SfcI CTRYAG 2 cut(s) 260, 510
SmiMI CAYNNNNRTG 1 cut(s) 654
SmlI CTYRAG 2 cut(s) 593, 707
SmoI CTYRAG 2 cut(s) 593, 707
SnaBI TACGTA 1 cut(s) 127
Sse9I AATT 4 cut(s) 67, 682, 748, 754
SsiI CCGC 1 cut(s) 551
SspMI CTAG 1 cut(s) 56
StyD4I CCNGG 1 cut(s) 77
StyI CCWWGG 1 cut(s) 636
TaaI ACNGT 3 cut(s) 287, 344, 358
TaiI ACGT 5 cut(s) 29, 129, 187, 207, 498
TaqI TCGA 1 cut(s) 42
TasI AATT 4 cut(s) 67, 682, 748, 754
TauI GCSGC 1 cut(s) 553
TfiI GAWTC 1 cut(s) 97
Tru1I TTAA 3 cut(s) 351, 594, 708
Tru9I TTAA 3 cut(s) 351, 594, 708
TscAI CASTG 2 cut(s) 292, 361
TseFI GTSAC 1 cut(s) 582
Tsp45I GTSAC 1 cut(s) 582
TspDTI ATGAA 5 cut(s) 195, 263, 422, 434, 500
TspGWI ACGGA 1 cut(s) 329
TspRI CASTG 2 cut(s) 292, 361
Vha464I CTTAAG 2 cut(s) 593, 707
XceI RCATGY 1 cut(s) 460
XspI CTAG 1 cut(s) 56
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.