pycom39g00040

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
tig00000039
OG0002402
Physical Location & Seq
Forward (+)
33335 .. 34282
948 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 822 bp
ATGGTTGGAAGCACGTTCGCGAAAATACTCGACAAACATTGCCTAGAGGGGCATAATTTCCCAACCTGGTATCGTAATGTCAAGATTCTCCTAACATTGGAGAAGATCATTTACGTACTTGACAAGCCTCTTCCTGACATACCTCTTGGCCCTGAGGCCACAGAGGATGAACGTGCTAAGTATGACAAGCACGTTGACGATGATACACAAGCCAAGTGCTATCTGTTGGCTTCTATGAATGAGGAGCTACAGAGACAGCACGAGGGCATGGACAGTGCATTTTCCATAATACTCCATCTTACGGAGTTATATGGTGAAGGGACGGTCAAAGGGGCTCCAGTGCATCAACATGTACTGAAGATGATAGGATTCATAGAACAACTGGAGAACCTAGGTACTCCACTTGACGGGGAATTGGCCCAGGACTTTATATTGGCTTCTCTTCCTGATTCATTTTCACAGTTCGTAATGAACTACAACATGAATAAGATGGATCATACTCTCTCTGAGTTACTAAATATGTTAGTAACTGCTGAGAAGACTATGAAAGAGAACGTTGTAGGGACTGTTGCAGTAGCCTACAACAAGCCATCCTCTTCCAATCCTAAGCCGTATGGCAAAGGAAAGGGGAAGGAGATAAAGTCTCCCACTCCTAAGCCGAAAGAAGGAGTGAAGAAAAAGAAAAAGGAAATGGAGCCCAAGGGGACTTGCCACTGGTGCGAGATTTATACACTAGGGATCGTTCTGGACCGGGGATTAGGAGGGATTGTTAATCACTTGGATTTGACTCAAAAACGTAAAACTAAACACTTAAAACATTAA
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

274

Amino Acids

30.74

Weight (kDa)

7.2

Isoelectric Point (pI)

26.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 110 - 184 2.9e-07 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)
AccII CGCG 1 cut(s) 20
AclI AACGTT 1 cut(s) 555
AclWI GGATC 2 cut(s) 501, 746
AcuI CTGAAG 1 cut(s) 377
AfaI GTAC 3 cut(s) 117, 354, 397
AfiI CCNNNNNNNGG 4 cut(s) 97, 301, 407, 665
AflIII ACRYGT 1 cut(s) 349
AjnI CCWGG 2 cut(s) 65, 420
AluBI AGCT 1 cut(s) 247
AluI AGCT 1 cut(s) 247
Alw26I GTCTC 2 cut(s) 247, 648
AlwI GGATC 2 cut(s) 501, 746
AoxI GGCC 3 cut(s) 148, 156, 417
AspA2I CCTAGG 1 cut(s) 391
AspS9I GGNCC 3 cut(s) 149, 418, 748
AsuC2I CCSGG 1 cut(s) 752
AsuHPI GGTGA 1 cut(s) 326
AvaII GGWCC 1 cut(s) 748
AvrII CCTAGG 1 cut(s) 391
AxyI CCTNAGG 1 cut(s) 153
BanII GRGCYC 2 cut(s) 337, 699
BarI GAAGNNNNNNTAC 2 cut(s) 95, 127
BauI CACGAG 1 cut(s) 260
BbsI GAAGAC 1 cut(s) 545
BccI CCATC 3 cut(s) 303, 484, 598
BceAI ACGGC 1 cut(s) 595
BciT130I CCWGG 2 cut(s) 67, 422
BcnI CCSGG 1 cut(s) 752
BcoDI GTCTC 2 cut(s) 247, 648
BfaI CTAG 3 cut(s) 44, 392, 734
BfmI CTRYAG 1 cut(s) 248
BlnI CCTAGG 1 cut(s) 391
Bme1390I CCNGG 3 cut(s) 67, 422, 752
Bme18I GGWCC 1 cut(s) 748
BmgT120I GGNCC 3 cut(s) 149, 418, 748
BmiI GGNNCC 2 cut(s) 336, 696
BmrFI CCNGG 3 cut(s) 67, 422, 752
BmsI GCATC 1 cut(s) 352
BpiI GAAGAC 1 cut(s) 545
BpmI CTGGAG 2 cut(s) 321, 404
Bpu10I CCTNAGC 2 cut(s) 606, 654
BpuMI CCSGG 1 cut(s) 752
BsaAI YACGTR 1 cut(s) 115
BsaJI CCNNGG 4 cut(s) 391, 420, 699, 751
BsaXI ACNNNNNCTCC 4 cut(s) 626, 656, 753, 783
Bsc4I CCNNNNNNNGG 4 cut(s) 97, 301, 407, 665
Bse1I ACTGG 3 cut(s) 338, 387, 719
Bse21I CCTNAGG 1 cut(s) 153
Bse3DI GCAATG 1 cut(s) 37
BseBI CCWGG 2 cut(s) 67, 422
BseDI CCNNGG 4 cut(s) 391, 420, 699, 751
BseGI GGATG 2 cut(s) 172, 590
BseLI CCNNNNNNNGG 4 cut(s) 97, 301, 407, 665
BseMI GCAATG 1 cut(s) 37
BseMII CTCAG 3 cut(s) 144, 498, 525
BseNI ACTGG 3 cut(s) 338, 387, 719
BseRI GAGGAG 1 cut(s) 257
Bsh1236I CGCG 1 cut(s) 20
BshFI GGCC 3 cut(s) 150, 158, 419
BsiSI CCGG 1 cut(s) 751
BslFI GGGAC 3 cut(s) 334, 577, 718
BslI CCNNNNNNNGG 4 cut(s) 97, 301, 407, 665
BsmAI GTCTC 2 cut(s) 247, 648
BsmFI GGGAC 3 cut(s) 334, 577, 718
BsnI GGCC 3 cut(s) 150, 158, 419
Bsp1286I GDGCHC 2 cut(s) 337, 699
Bsp143I GATC 3 cut(s) 105, 493, 738
Bsp68I TCGCGA 1 cut(s) 20
BspANI GGCC 3 cut(s) 150, 158, 419
BspCNI CTCAG 3 cut(s) 145, 499, 526
BspFNI CGCG 1 cut(s) 20
BspLI GGNNCC 2 cut(s) 336, 696
BspPI GGATC 2 cut(s) 501, 746
BsrDI GCAATG 1 cut(s) 37
BsrI ACTGG 3 cut(s) 338, 387, 719
BssECI CCNNGG 4 cut(s) 391, 420, 699, 751
BssMI GATC 3 cut(s) 105, 493, 738
BssSI CACGAG 1 cut(s) 260
BssT1I CCWWGG 2 cut(s) 391, 699
Bst2BI CACGAG 1 cut(s) 260
Bst2UI CCWGG 2 cut(s) 67, 422
Bst4CI ACNGT 4 cut(s) 275, 325, 462, 568
Bst6I CTCTTC 3 cut(s) 135, 447, 601
BstBAI YACGTR 1 cut(s) 115
BstDEI CTNAG 6 cut(s) 153, 177, 507, 534, 606, 654
BstF5I GGATG 2 cut(s) 172, 590
BstFNI CGCG 1 cut(s) 20
BstKTI GATC 3 cut(s) 108, 496, 741
BstMAI GTCTC 2 cut(s) 247, 648
BstMBI GATC 3 cut(s) 105, 493, 738
BstMWI GCNNNNNNNGC 1 cut(s) 717
BstNI CCWGG 2 cut(s) 67, 422
BstNSI RCATGY 1 cut(s) 353
BstSCI CCNGG 3 cut(s) 65, 420, 750
BstSFI CTRYAG 1 cut(s) 248
BstSNI TACGTA 1 cut(s) 115
BstUI CGCG 1 cut(s) 20
BstV2I GAAGAC 1 cut(s) 545
Bsu36I CCTNAGG 1 cut(s) 153
BsuRI GGCC 3 cut(s) 150, 158, 419
BtsCI GGATG 2 cut(s) 172, 590
BtsIMutI CAGTG 3 cut(s) 280, 345, 712
BtuMI TCGCGA 1 cut(s) 20
Cfr13I GGNCC 3 cut(s) 149, 418, 748
CsiI ACCWGGT 1 cut(s) 65
Csp6I GTAC 3 cut(s) 116, 353, 396
CviAII CATG 3 cut(s) 268, 350, 481
CviQI GTAC 3 cut(s) 116, 353, 396
DdeI CTNAG 6 cut(s) 153, 177, 507, 534, 606, 654
DpnI GATC 3 cut(s) 107, 495, 740
DpnII GATC 3 cut(s) 105, 493, 738
Eam1104I CTCTTC 3 cut(s) 135, 447, 601
EarI CTCTTC 3 cut(s) 135, 447, 601
Eco105I TACGTA 1 cut(s) 115
Eco130I CCWWGG 2 cut(s) 391, 699
Eco24I GRGCYC 2 cut(s) 337, 699
Eco47I GGWCC 1 cut(s) 748
Eco57I CTGAAG 1 cut(s) 377
Eco81I CCTNAGG 1 cut(s) 153
EcoRII CCWGG 2 cut(s) 65, 420
EcoT14I CCWWGG 2 cut(s) 391, 699
EcoT38I GRGCYC 2 cut(s) 337, 699
ErhI CCWWGG 2 cut(s) 391, 699
FaeI CATG 3 cut(s) 271, 353, 484
FaqI GGGAC 3 cut(s) 334, 577, 718
FatI CATG 3 cut(s) 267, 349, 480
FokI GGATG 2 cut(s) 179, 577
FriOI GRGCYC 2 cut(s) 337, 699
FspBI CTAG 3 cut(s) 44, 392, 734
GsuI CTGGAG 2 cut(s) 321, 404
HaeIII GGCC 3 cut(s) 150, 158, 419
HapII CCGG 1 cut(s) 751
Hin1II CATG 3 cut(s) 271, 353, 484
HincII GTYRAC 1 cut(s) 196
HindII GTYRAC 1 cut(s) 196
HinfI GANTC 4 cut(s) 85, 369, 449, 787
HpaII CCGG 1 cut(s) 751
HphI GGTGA 1 cut(s) 326
Hpy166II GTNNAC 1 cut(s) 196
Hpy188I TCNGA 1 cut(s) 508
Hpy188III TCNNGA 5 cut(s) 19, 82, 134, 446, 746
Hpy8I GTNNAC 1 cut(s) 196
HpyAV CCTTC 3 cut(s) 311, 625, 659
HpyCH4III ACNGT 4 cut(s) 275, 325, 462, 568
HpyCH4IV ACGT 6 cut(s) 14, 114, 172, 192, 555, 796
HpyCH4V TGCA 3 cut(s) 278, 343, 572
HpyF10VI GCNNNNNNNGC 1 cut(s) 717
HpyF3I CTNAG 6 cut(s) 153, 177, 507, 534, 606, 654
HpySE526I ACGT 6 cut(s) 14, 114, 172, 192, 555, 796
Hsp92II CATG 3 cut(s) 271, 353, 484
Kzo9I GATC 3 cut(s) 105, 493, 738
LmnI GCTCC 3 cut(s) 244, 340, 694
LweI GCATC 1 cut(s) 352
MabI ACCWGGT 1 cut(s) 65
MaeI CTAG 3 cut(s) 44, 392, 734
MaeII ACGT 6 cut(s) 14, 114, 172, 192, 555, 796
MaeIII GTNAC 2 cut(s) 510, 526
MalI GATC 3 cut(s) 107, 495, 740
MboI GATC 3 cut(s) 105, 493, 738
MboII GAAGA 7 cut(s) 115, 122, 370, 434, 550, 588, 685
MhlI GDGCHC 2 cut(s) 337, 699
MluCI AATT 2 cut(s) 55, 413
MlyI GAGTC 1 cut(s) 781
MnlI CCTC 9 cut(s) 40, 138, 148, 153, 157, 235, 256, 604, 755
MseI TTAA 3 cut(s) 771, 812, 820
MslI CAYNNNNRTG 1 cut(s) 348
MspI CCGG 1 cut(s) 751
MspR9I CCNGG 3 cut(s) 67, 422, 752
MvaI CCWGG 2 cut(s) 67, 422
MvnI CGCG 1 cut(s) 20
MwoI GCNNNNNNNGC 1 cut(s) 717
NciI CCSGG 1 cut(s) 752
NdeII GATC 3 cut(s) 105, 493, 738
NlaIII CATG 3 cut(s) 271, 353, 484
NlaIV GGNNCC 2 cut(s) 336, 696
NruI TCGCGA 1 cut(s) 20
NspI RCATGY 1 cut(s) 353
PciI ACATGT 1 cut(s) 349
PfeI GAWTC 3 cut(s) 85, 369, 449
PleI GAGTC 1 cut(s) 781
PpsI GAGTC 1 cut(s) 781
Ppu21I YACGTR 1 cut(s) 115
PscI ACATGT 1 cut(s) 349
Psp1406I AACGTT 1 cut(s) 555
Psp6I CCWGG 2 cut(s) 65, 420
PspGI CCWGG 2 cut(s) 65, 420
PspN4I GGNNCC 2 cut(s) 336, 696
PspPI GGNCC 3 cut(s) 149, 418, 748
RruI TCGCGA 1 cut(s) 20
RsaI GTAC 3 cut(s) 117, 354, 397
RsaNI GTAC 3 cut(s) 116, 353, 396
RseI CAYNNNNRTG 1 cut(s) 348
SaqAI TTAA 3 cut(s) 771, 812, 820
Sau3AI GATC 3 cut(s) 105, 493, 738
Sau96I GGNCC 3 cut(s) 149, 418, 748
SchI GAGTC 1 cut(s) 781
ScrFI CCNGG 3 cut(s) 67, 422, 752
SduI GDGCHC 2 cut(s) 337, 699
SexAI ACCWGGT 1 cut(s) 65
SfaNI GCATC 1 cut(s) 352
SfcI CTRYAG 1 cut(s) 248
SinI GGWCC 1 cut(s) 748
SmiMI CAYNNNNRTG 1 cut(s) 348
SnaBI TACGTA 1 cut(s) 115
Sse9I AATT 2 cut(s) 55, 413
SspMI CTAG 3 cut(s) 44, 392, 734
StyD4I CCNGG 3 cut(s) 65, 420, 750
StyI CCWWGG 2 cut(s) 391, 699
TaaI ACNGT 4 cut(s) 275, 325, 462, 568
TaiI ACGT 6 cut(s) 17, 117, 175, 195, 558, 799
TaqI TCGA 1 cut(s) 30
TasI AATT 2 cut(s) 55, 413
TatI WGTACW 1 cut(s) 352
TfiI GAWTC 3 cut(s) 85, 369, 449
Tru1I TTAA 3 cut(s) 771, 812, 820
Tru9I TTAA 3 cut(s) 771, 812, 820
TscAI CASTG 3 cut(s) 280, 345, 719
TspDTI ATGAA 7 cut(s) 183, 251, 361, 441, 485, 497, 560
TspGWI ACGGA 1 cut(s) 317
TspRI CASTG 3 cut(s) 280, 345, 719
VpaK11BI GGWCC 1 cut(s) 748
XceI RCATGY 1 cut(s) 353
XmaJI CCTAGG 1 cut(s) 391
XspI CTAG 3 cut(s) 44, 392, 734
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.