pycom01g00030

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr1
OG0021251
Physical Location & Seq
Reverse (-)
59731 .. 60226
496 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom01g00030.1

Sequence Viewer

Length: 456 bp
ATGCGATTTCTGTTATGTTATGTAGTTAACGACATGCCTAAAATACTACCCACCATTATACTTGACAAAATGGCCCAAGACTTTTTCCTTGCATATCTCTCGGATGATTTCACTAAGTTTATTGTAAACTATAAAGTGAATAGATTCGATCATACTTTTAACGAGATGATTGACATGTGCTGTAAATTTGAAAAATGTTTCAAAAAGGACAGTGGGAGTGAGAATGCAAAAACAAGGAAAATGTTACATAAGAAGAAGGCAAAGAAATCCAAAGGAACATGCTTTCATTGTGGAAAGGATGAACGTTGGAAGAAGAAATACAGGGTGCGCATTGCGAGCCTTATGACACGAACTTTTGAAGAGACTATTTCGGTCATAGAAAGTGCTTTTACAGTGAGCTCCAATTCCTGGATATTTGATTCAGGTAGAGCAAGACACTGCGCAATGGGGAGATAG
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

152

Amino Acids

17.8

Weight (kDa)

9.57

Isoelectric Point (pI)

36.19

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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
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Orthologous Genes (Group: OG0021251)

Species Orthologous Gene IDs
pyrus_communis pycom01g00030 pycom03g10950 pycom06g06370 pycom06g08850 pycom07g11760

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 2 cut(s) 329, 442
AccB7I CCANNNNNTGG 1 cut(s) 408
AclI AACGTT 1 cut(s) 304
AcsI RAATTY 1 cut(s) 185
AfiI CCNNNNNNNGG 1 cut(s) 408
AflIII ACRYGT 1 cut(s) 174
AgsI TTSAA 3 cut(s) 191, 202, 359
AjnI CCWGG 1 cut(s) 407
AluBI AGCT 1 cut(s) 399
AluI AGCT 1 cut(s) 399
Alw21I GWGCWC 1 cut(s) 401
Alw26I GTCTC 1 cut(s) 356
AoxI GGCC 1 cut(s) 72
ApoI RAATTY 1 cut(s) 185
Asp700I GAANNNNTTC 1 cut(s) 143
AspLEI GCGC 2 cut(s) 330, 443
AspS9I GGNCC 1 cut(s) 73
BanII GRGCYC 1 cut(s) 401
BarI GAAGNNNNNNTAC 2 cut(s) 302, 334
Bbv12I GWGCWC 1 cut(s) 401
BcgI CGANNNNNNTGC 2 cut(s) 81, 115
BciT130I CCWGG 1 cut(s) 409
BcoDI GTCTC 1 cut(s) 356
Bme1390I CCNGG 1 cut(s) 409
BmgT120I GGNCC 1 cut(s) 73
BmrFI CCNGG 1 cut(s) 409
Bsc4I CCNNNNNNNGG 1 cut(s) 408
Bse3DI GCAATG 2 cut(s) 330, 450
BseBI CCWGG 1 cut(s) 409
BseGI GGATG 2 cut(s) 109, 304
BseLI CCNNNNNNNGG 1 cut(s) 408
BseMI GCAATG 2 cut(s) 330, 450
BshFI GGCC 1 cut(s) 74
BsiHKAI GWGCWC 1 cut(s) 401
BslI CCNNNNNNNGG 1 cut(s) 408
BsmAI GTCTC 1 cut(s) 356
BsmI GAATGC 1 cut(s) 229
BsnI GGCC 1 cut(s) 74
Bsp1286I GDGCHC 1 cut(s) 401
Bsp143I GATC 1 cut(s) 148
BspANI GGCC 1 cut(s) 74
BsrDI GCAATG 2 cut(s) 330, 450
BssMI GATC 1 cut(s) 148
Bst2UI CCWGG 1 cut(s) 409
Bst4CI ACNGT 2 cut(s) 212, 394
Bst6I CTCTTC 1 cut(s) 354
BstC8I GCNNGC 1 cut(s) 337
BstDEI CTNAG 1 cut(s) 114
BstF5I GGATG 2 cut(s) 109, 304
BstHHI GCGC 2 cut(s) 330, 443
BstKTI GATC 1 cut(s) 151
BstMAI GTCTC 1 cut(s) 356
BstMBI GATC 1 cut(s) 148
BstMWI GCNNNNNNNGC 1 cut(s) 336
BstNI CCWGG 1 cut(s) 409
BstNSI RCATGY 3 cut(s) 37, 178, 282
BstSCI CCNGG 1 cut(s) 407
BsuRI GGCC 1 cut(s) 74
BtsCI GGATG 2 cut(s) 109, 304
BtsI GCAGTG 1 cut(s) 436
BtsIMutI CAGTG 3 cut(s) 217, 399, 436
Cac8I GCNNGC 1 cut(s) 337
CfoI GCGC 2 cut(s) 330, 443
Cfr13I GGNCC 1 cut(s) 73
CviAII CATG 3 cut(s) 34, 175, 279
CviJI RGCY 3 cut(s) 74, 339, 399
CviKI_1 RGCY 3 cut(s) 74, 339, 399
DdeI CTNAG 1 cut(s) 114
DpnI GATC 1 cut(s) 150
DpnII GATC 1 cut(s) 148
Eam1104I CTCTTC 1 cut(s) 354
EarI CTCTTC 1 cut(s) 354
Ecl136II GAGCTC 1 cut(s) 399
Eco24I GRGCYC 1 cut(s) 401
Eco53kI GAGCTC 1 cut(s) 399
EcoICRI GAGCTC 1 cut(s) 399
EcoRII CCWGG 1 cut(s) 407
EcoT38I GRGCYC 1 cut(s) 401
FaeI CATG 3 cut(s) 37, 178, 282
FatI CATG 3 cut(s) 33, 174, 278
FokI GGATG 2 cut(s) 116, 311
FriOI GRGCYC 1 cut(s) 401
FspAI RTGCGCAY 1 cut(s) 329
FspI TGCGCA 2 cut(s) 329, 442
GlaI GCGC 2 cut(s) 329, 442
HaeIII GGCC 1 cut(s) 74
HhaI GCGC 2 cut(s) 330, 443
Hin1II CATG 3 cut(s) 37, 178, 282
Hin6I GCGC 2 cut(s) 328, 441
HinP1I GCGC 2 cut(s) 328, 441
HincII GTYRAC 1 cut(s) 28
HindII GTYRAC 1 cut(s) 28
HinfI GANTC 2 cut(s) 144, 419
HpaI GTTAAC 1 cut(s) 28
Hpy166II GTNNAC 2 cut(s) 28, 127
Hpy188I TCNGA 1 cut(s) 103
Hpy8I GTNNAC 2 cut(s) 28, 127
HpyAV CCTTC 1 cut(s) 250
HpyCH4III ACNGT 2 cut(s) 212, 394
HpyCH4IV ACGT 1 cut(s) 304
HpyCH4V TGCA 2 cut(s) 92, 227
HpyF10VI GCNNNNNNNGC 1 cut(s) 336
HpyF3I CTNAG 1 cut(s) 114
HpySE526I ACGT 1 cut(s) 304
Hsp92II CATG 3 cut(s) 37, 178, 282
HspAI GCGC 2 cut(s) 328, 441
KspAI GTTAAC 1 cut(s) 28
Kzo9I GATC 1 cut(s) 148
LmnI GCTCC 1 cut(s) 404
LpnPI CCDG 4 cut(s) 307, 394, 408, 421
MaeII ACGT 1 cut(s) 304
MaeIII GTNAC 1 cut(s) 243
MalI GATC 1 cut(s) 150
MboI GATC 1 cut(s) 148
MboII GAAGA 4 cut(s) 265, 322, 325, 371
MhlI GDGCHC 1 cut(s) 401
MluCI AATT 2 cut(s) 185, 403
MmeI TCCRAC 1 cut(s) 287
MroXI GAANNNNTTC 1 cut(s) 143
MseI TTAA 2 cut(s) 27, 159
MspR9I CCNGG 1 cut(s) 409
Mva1269I GAATGC 1 cut(s) 229
MvaI CCWGG 1 cut(s) 409
MwoI GCNNNNNNNGC 1 cut(s) 336
NdeII GATC 1 cut(s) 148
NlaIII CATG 3 cut(s) 37, 178, 282
NsbI TGCGCA 2 cut(s) 329, 442
NspI RCATGY 3 cut(s) 37, 178, 282
PciI ACATGT 1 cut(s) 174
PctI GAATGC 1 cut(s) 229
PdmI GAANNNNTTC 1 cut(s) 143
PfeI GAWTC 2 cut(s) 144, 419
PflMI CCANNNNNTGG 1 cut(s) 408
PfoI TCCNGGA 1 cut(s) 407
PscI ACATGT 1 cut(s) 174
Psp124BI GAGCTC 1 cut(s) 401
Psp1406I AACGTT 1 cut(s) 304
Psp6I CCWGG 1 cut(s) 407
PspGI CCWGG 1 cut(s) 407
PspPI GGNCC 1 cut(s) 73
SacI GAGCTC 1 cut(s) 401
SaqAI TTAA 2 cut(s) 27, 159
Sau3AI GATC 1 cut(s) 148
Sau96I GGNCC 1 cut(s) 73
ScrFI CCNGG 1 cut(s) 409
SduI GDGCHC 1 cut(s) 401
SetI ASST 3 cut(s) 307, 401, 427
Sse9I AATT 2 cut(s) 185, 403
SstI GAGCTC 1 cut(s) 401
StyD4I CCNGG 1 cut(s) 407
TaaI ACNGT 2 cut(s) 212, 394
TaiI ACGT 1 cut(s) 307
TaqI TCGA 1 cut(s) 147
TaqII GACCGA 1 cut(s) 361
TasI AATT 2 cut(s) 185, 403
TfiI GAWTC 2 cut(s) 144, 419
Tru1I TTAA 2 cut(s) 27, 159
Tru9I TTAA 2 cut(s) 27, 159
TscAI CASTG 3 cut(s) 217, 399, 443
TspDTI ATGAA 2 cut(s) 275, 315
TspRI CASTG 3 cut(s) 217, 399, 443
Van91I CCANNNNNTGG 1 cut(s) 408
XapI RAATTY 1 cut(s) 185
XceI RCATGY 3 cut(s) 37, 178, 282
XmnI GAANNNNTTC 1 cut(s) 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.