pycom03g10950

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr3
OG0021251
Physical Location & Seq
Forward (+)
10389539 .. 10390001
463 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom03g10950.1

Sequence Viewer

Length: 423 bp
ATGCCTAAAATACTACCCACCATTATACTTGACAAAATGGCCCAAGACTTTTTCCTTGCATATCTCTCGGATGATTTCACTAAGTTTATTGTAAACTATAAAGTGAATAGATTCGATCATACTTTTAACGAGATGATTGACATGTGCTGTAAATTTGAAAAATGTTTCAAAAAGGACAGTGGGAGTGAGAATGCAAAAACAAGGAAAAGGTTACATAAGAAGAAGGCAAAGAAATCCAAAGGAACATGCTTTCATTGTGGAAAGGATGAACGTTGGAAGAAGAAATACAGGGTGCGCATTGCGAGCCTTATGACACGAACTTTTGAAGAGACTATTTCGGTCATAGAAAGTGCTTTTACAGTGAGCTCCAATTCCTGGATATTTGATTCAGGCAGAGCAAGACACTGCGCAATGGGGAGATAG
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

141

Amino Acids

16.47

Weight (kDa)

9.72

Isoelectric Point (pI)

38.79

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 296, 409
AccB7I CCANNNNNTGG 1 cut(s) 375
AclI AACGTT 1 cut(s) 271
AcsI RAATTY 1 cut(s) 152
AfiI CCNNNNNNNGG 1 cut(s) 375
AflIII ACRYGT 1 cut(s) 141
AgsI TTSAA 3 cut(s) 158, 169, 326
AjnI CCWGG 1 cut(s) 374
AluBI AGCT 1 cut(s) 366
AluI AGCT 1 cut(s) 366
Alw21I GWGCWC 1 cut(s) 368
Alw26I GTCTC 1 cut(s) 323
AoxI GGCC 1 cut(s) 39
ApoI RAATTY 1 cut(s) 152
Asp700I GAANNNNTTC 1 cut(s) 110
AspLEI GCGC 2 cut(s) 297, 410
AspS9I GGNCC 1 cut(s) 40
BanII GRGCYC 1 cut(s) 368
BarI GAAGNNNNNNTAC 2 cut(s) 269, 301
Bbv12I GWGCWC 1 cut(s) 368
BcgI CGANNNNNNTGC 2 cut(s) 48, 82
BciT130I CCWGG 1 cut(s) 376
BcoDI GTCTC 1 cut(s) 323
Bme1390I CCNGG 1 cut(s) 376
BmgT120I GGNCC 1 cut(s) 40
BmrFI CCNGG 1 cut(s) 376
Bsc4I CCNNNNNNNGG 1 cut(s) 375
Bse3DI GCAATG 2 cut(s) 297, 417
BseBI CCWGG 1 cut(s) 376
BseGI GGATG 2 cut(s) 76, 271
BseLI CCNNNNNNNGG 1 cut(s) 375
BseMI GCAATG 2 cut(s) 297, 417
BshFI GGCC 1 cut(s) 41
BsiHKAI GWGCWC 1 cut(s) 368
BslI CCNNNNNNNGG 1 cut(s) 375
BsmAI GTCTC 1 cut(s) 323
BsmI GAATGC 1 cut(s) 196
BsnI GGCC 1 cut(s) 41
Bsp1286I GDGCHC 1 cut(s) 368
Bsp143I GATC 1 cut(s) 115
BspANI GGCC 1 cut(s) 41
BsrDI GCAATG 2 cut(s) 297, 417
BssMI GATC 1 cut(s) 115
Bst2UI CCWGG 1 cut(s) 376
Bst4CI ACNGT 2 cut(s) 179, 361
Bst6I CTCTTC 1 cut(s) 321
BstC8I GCNNGC 1 cut(s) 304
BstDEI CTNAG 1 cut(s) 81
BstF5I GGATG 2 cut(s) 76, 271
BstHHI GCGC 2 cut(s) 297, 410
BstKTI GATC 1 cut(s) 118
BstMAI GTCTC 1 cut(s) 323
BstMBI GATC 1 cut(s) 115
BstMWI GCNNNNNNNGC 1 cut(s) 303
BstNI CCWGG 1 cut(s) 376
BstNSI RCATGY 2 cut(s) 145, 249
BstSCI CCNGG 1 cut(s) 374
BsuRI GGCC 1 cut(s) 41
BtsCI GGATG 2 cut(s) 76, 271
BtsI GCAGTG 1 cut(s) 403
BtsIMutI CAGTG 3 cut(s) 184, 366, 403
Cac8I GCNNGC 1 cut(s) 304
CfoI GCGC 2 cut(s) 297, 410
Cfr13I GGNCC 1 cut(s) 40
CviAII CATG 2 cut(s) 142, 246
CviJI RGCY 3 cut(s) 41, 306, 366
CviKI_1 RGCY 3 cut(s) 41, 306, 366
DdeI CTNAG 1 cut(s) 81
DpnI GATC 1 cut(s) 117
DpnII GATC 1 cut(s) 115
Eam1104I CTCTTC 1 cut(s) 321
EarI CTCTTC 1 cut(s) 321
Ecl136II GAGCTC 1 cut(s) 366
Eco24I GRGCYC 1 cut(s) 368
Eco53kI GAGCTC 1 cut(s) 366
EcoICRI GAGCTC 1 cut(s) 366
EcoRII CCWGG 1 cut(s) 374
EcoT38I GRGCYC 1 cut(s) 368
FaeI CATG 2 cut(s) 145, 249
FaiI YATR 9 cut(s) 26, 61, 99, 120, 143, 216, 247, 311, 344
FatI CATG 2 cut(s) 141, 245
FokI GGATG 2 cut(s) 83, 278
FriOI GRGCYC 1 cut(s) 368
FspAI RTGCGCAY 1 cut(s) 296
FspI TGCGCA 2 cut(s) 296, 409
GlaI GCGC 2 cut(s) 296, 409
HaeIII GGCC 1 cut(s) 41
HhaI GCGC 2 cut(s) 297, 410
Hin1II CATG 2 cut(s) 145, 249
Hin6I GCGC 2 cut(s) 295, 408
HinP1I GCGC 2 cut(s) 295, 408
HinfI GANTC 2 cut(s) 111, 386
Hpy166II GTNNAC 1 cut(s) 94
Hpy188I TCNGA 1 cut(s) 70
Hpy8I GTNNAC 1 cut(s) 94
HpyAV CCTTC 1 cut(s) 217
HpyCH4III ACNGT 2 cut(s) 179, 361
HpyCH4IV ACGT 1 cut(s) 271
HpyCH4V TGCA 2 cut(s) 59, 194
HpyF10VI GCNNNNNNNGC 1 cut(s) 303
HpyF3I CTNAG 1 cut(s) 81
HpySE526I ACGT 1 cut(s) 271
Hsp92II CATG 2 cut(s) 145, 249
HspAI GCGC 2 cut(s) 295, 408
Kzo9I GATC 1 cut(s) 115
LmnI GCTCC 1 cut(s) 371
LpnPI CCDG 4 cut(s) 274, 361, 375, 388
MaeII ACGT 1 cut(s) 271
MaeIII GTNAC 1 cut(s) 210
MalI GATC 1 cut(s) 117
MboI GATC 1 cut(s) 115
MboII GAAGA 4 cut(s) 232, 289, 292, 338
MhlI GDGCHC 1 cut(s) 368
MluCI AATT 2 cut(s) 152, 370
MmeI TCCRAC 1 cut(s) 254
MroXI GAANNNNTTC 1 cut(s) 110
MseI TTAA 1 cut(s) 126
MspR9I CCNGG 1 cut(s) 376
Mva1269I GAATGC 1 cut(s) 196
MvaI CCWGG 1 cut(s) 376
MwoI GCNNNNNNNGC 1 cut(s) 303
NdeII GATC 1 cut(s) 115
NlaIII CATG 2 cut(s) 145, 249
NsbI TGCGCA 2 cut(s) 296, 409
NspI RCATGY 2 cut(s) 145, 249
PciI ACATGT 1 cut(s) 141
PctI GAATGC 1 cut(s) 196
PdmI GAANNNNTTC 1 cut(s) 110
PfeI GAWTC 2 cut(s) 111, 386
PflMI CCANNNNNTGG 1 cut(s) 375
PfoI TCCNGGA 1 cut(s) 374
PscI ACATGT 1 cut(s) 141
Psp124BI GAGCTC 1 cut(s) 368
Psp1406I AACGTT 1 cut(s) 271
Psp6I CCWGG 1 cut(s) 374
PspGI CCWGG 1 cut(s) 374
PspPI GGNCC 1 cut(s) 40
SacI GAGCTC 1 cut(s) 368
SaqAI TTAA 1 cut(s) 126
Sau3AI GATC 1 cut(s) 115
Sau96I GGNCC 1 cut(s) 40
ScrFI CCNGG 1 cut(s) 376
SduI GDGCHC 1 cut(s) 368
SetI ASST 3 cut(s) 212, 274, 368
Sse9I AATT 2 cut(s) 152, 370
SstI GAGCTC 1 cut(s) 368
StyD4I CCNGG 1 cut(s) 374
TaaI ACNGT 2 cut(s) 179, 361
TaiI ACGT 1 cut(s) 274
TaqI TCGA 1 cut(s) 114
TaqII GACCGA 1 cut(s) 328
TasI AATT 2 cut(s) 152, 370
TfiI GAWTC 2 cut(s) 111, 386
Tru1I TTAA 1 cut(s) 126
Tru9I TTAA 1 cut(s) 126
TscAI CASTG 3 cut(s) 184, 366, 410
TspDTI ATGAA 2 cut(s) 242, 282
TspRI CASTG 3 cut(s) 184, 366, 410
Van91I CCANNNNNTGG 1 cut(s) 375
XapI RAATTY 1 cut(s) 152
XceI RCATGY 2 cut(s) 145, 249
XmnI GAANNNNTTC 1 cut(s) 110
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.