MD09G1025300.v1.1

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0001306
Physical Location & Seq
Reverse (-)
1520806 .. 1522238
1433 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1025300.v1.1.491

Sequence Viewer

Length: 378 bp
ATGGGGTCACTGGTTGATGGGGTTAATTCTTTGCCGAAATTTCGCTATTCTGCACCGCCTGAGGTAGGCAAGAACCCTCCTTCCACAACTGGGACTCCTCGTCCTTCTCAGCCCTCATCTCCAAAACAATCAAGAAGCGAAGGGGTTTCGTCGCCATCCTGCGTGACTGCGCATACTTATTCGGTGAAGACAGACAGCTACTCAAATGGTTCTGTAAATAATCAAAAGAACCCCAACAAGGCAACTAATCATAACATGCAGCAGGAAGAGTTTCTTCATATGGGGAAACACTACCACAATTCGAATAAAGGAACTGTTAAAGAGCAAACCTGTCAGAAGAATATTGCACATGGTTTCAACACATGCCTTGACAGCTAA
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_3 Retrotrans_gag

Protein Analysis

126

Amino Acids

13.56

Weight (kDa)

9.24

Isoelectric Point (pI)

63.38

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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 171
AciI CCGC 1 cut(s) 56
AcsI RAATTY 1 cut(s) 38
AfiI CCNNNNNNNGG 3 cut(s) 65, 90, 238
AgsI TTSAA 1 cut(s) 358
AhdI GACNNNNNGTC 1 cut(s) 99
AloI GAACNNNNNNTCC 2 cut(s) 65, 97
AluBI AGCT 2 cut(s) 198, 375
AluI AGCT 2 cut(s) 198, 375
ApeKI GCWGC 1 cut(s) 259
ApoI RAATTY 1 cut(s) 38
Asp700I GAANNNNTTC 1 cut(s) 270
AspLEI GCGC 1 cut(s) 172
AsuHPI GGTGA 1 cut(s) 196
AsuII TTCGAA 1 cut(s) 302
AxyI CCTNAGG 1 cut(s) 60
BbsI GAAGAC 1 cut(s) 194
BbvI GCAGC 1 cut(s) 271
BccI CCATC 2 cut(s) 11, 163
BisI GCNGC 1 cut(s) 260
BlsI GCNGC 1 cut(s) 261
BmeRI GACNNNNNGTC 1 cut(s) 99
BmrI ACTGGG 1 cut(s) 99
BmuI ACTGGG 1 cut(s) 99
BpiI GAAGAC 1 cut(s) 194
Bpu14I TTCGAA 1 cut(s) 302
BsaXI ACNNNNNCTCC 2 cut(s) 79, 109
Bsc4I CCNNNNNNNGG 3 cut(s) 65, 90, 238
Bse1I ACTGG 2 cut(s) 15, 94
Bse21I CCTNAGG 1 cut(s) 60
BseGI GGATG 1 cut(s) 155
BseLI CCNNNNNNNGG 3 cut(s) 65, 90, 238
BseMII CTCAG 2 cut(s) 51, 122
BseNI ACTGG 2 cut(s) 15, 94
BseRI GAGGAG 1 cut(s) 87
BseXI GCAGC 1 cut(s) 271
BsgI GTGCAG 1 cut(s) 36
BslFI GGGAC 1 cut(s) 106
BslI CCNNNNNNNGG 3 cut(s) 65, 90, 238
BsmFI GGGAC 1 cut(s) 106
Bsp119I TTCGAA 1 cut(s) 302
BspACI CCGC 1 cut(s) 56
BspCNI CTCAG 2 cut(s) 52, 121
BspT104I TTCGAA 1 cut(s) 302
BsrI ACTGG 2 cut(s) 15, 94
Bst4CI ACNGT 1 cut(s) 316
Bst6I CTCTTC 1 cut(s) 261
BstBI TTCGAA 1 cut(s) 302
BstDEI CTNAG 2 cut(s) 60, 108
BstENI CCTNNNNNAGG 1 cut(s) 63
BstF5I GGATG 1 cut(s) 155
BstHHI GCGC 1 cut(s) 172
BstMWI GCNNNNNNNGC 1 cut(s) 372
BstNSI RCATGY 2 cut(s) 259, 366
BstV1I GCAGC 1 cut(s) 271
BstV2I GAAGAC 1 cut(s) 194
Bsu36I CCTNAGG 1 cut(s) 60
BtsCI GGATG 1 cut(s) 155
BtsIMutI CAGTG 1 cut(s) 8
CfoI GCGC 1 cut(s) 172
CviAII CATG 3 cut(s) 256, 350, 363
CviJI RGCY 3 cut(s) 112, 198, 375
CviKI_1 RGCY 3 cut(s) 112, 198, 375
DdeI CTNAG 2 cut(s) 60, 108
DriI GACNNNNNGTC 1 cut(s) 99
Eam1104I CTCTTC 1 cut(s) 261
Eam1105I GACNNNNNGTC 1 cut(s) 99
EarI CTCTTC 1 cut(s) 261
Eco81I CCTNAGG 1 cut(s) 60
EcoNI CCTNNNNNAGG 1 cut(s) 63
FaeI CATG 3 cut(s) 259, 353, 366
FaiI YATR 7 cut(s) 174, 252, 257, 279, 281, 351, 364
FalI AAGNNNNNCTT 2 cut(s) 258, 290
FaqI GGGAC 1 cut(s) 106
FatI CATG 3 cut(s) 255, 349, 362
FauNDI CATATG 1 cut(s) 279
Fnu4HI GCNGC 1 cut(s) 260
FokI GGATG 1 cut(s) 142
Fsp4HI GCNGC 1 cut(s) 260
FspI TGCGCA 1 cut(s) 171
GlaI GCGC 1 cut(s) 171
GluI GCNGC 1 cut(s) 260
HhaI GCGC 1 cut(s) 172
Hin1II CATG 3 cut(s) 259, 353, 366
Hin6I GCGC 1 cut(s) 170
HinP1I GCGC 1 cut(s) 170
HinfI GANTC 1 cut(s) 94
HphI GGTGA 1 cut(s) 196
Hpy188I TCNGA 1 cut(s) 336
Hpy188III TCNNGA 1 cut(s) 132
Hpy99I CGWCG 1 cut(s) 154
HpyAV CCTTC 3 cut(s) 90, 114, 134
HpyCH4III ACNGT 1 cut(s) 316
HpyCH4V TGCA 3 cut(s) 53, 259, 347
HpyF10VI GCNNNNNNNGC 1 cut(s) 372
HpyF3I CTNAG 2 cut(s) 60, 108
Hsp92II CATG 3 cut(s) 259, 353, 366
HspAI GCGC 1 cut(s) 170
LpnPI CCDG 5 cut(s) 72, 75, 172, 248, 343
Lsp1109I GCAGC 1 cut(s) 271
MaeIII GTNAC 2 cut(s) 6, 163
MboII GAAGA 4 cut(s) 199, 266, 278, 349
MluCI AATT 3 cut(s) 25, 38, 298
MlyI GAGTC 1 cut(s) 88
MnlI CCTC 4 cut(s) 55, 87, 108, 124
MroXI GAANNNNTTC 1 cut(s) 270
MseI TTAA 2 cut(s) 24, 318
MwoI GCNNNNNNNGC 1 cut(s) 372
NdeI CATATG 1 cut(s) 279
NlaIII CATG 3 cut(s) 259, 353, 366
NmuCI GTSAC 2 cut(s) 6, 163
NsbI TGCGCA 1 cut(s) 171
NspI RCATGY 2 cut(s) 259, 366
NspV TTCGAA 1 cut(s) 302
PdmI GAANNNNTTC 1 cut(s) 270
PkrI GCNGC 1 cut(s) 261
PleI GAGTC 1 cut(s) 88
PpsI GAGTC 1 cut(s) 88
SaqAI TTAA 2 cut(s) 24, 318
SatI GCNGC 1 cut(s) 260
SchI GAGTC 1 cut(s) 88
SetI ASST 4 cut(s) 66, 200, 332, 377
SfuI TTCGAA 1 cut(s) 302
Sse9I AATT 3 cut(s) 25, 38, 298
SsiI CCGC 1 cut(s) 56
SspI AATATT 1 cut(s) 343
TaaI ACNGT 1 cut(s) 316
TaqI TCGA 1 cut(s) 302
TasI AATT 3 cut(s) 25, 38, 298
Tru1I TTAA 2 cut(s) 24, 318
Tru9I TTAA 2 cut(s) 24, 318
TscAI CASTG 1 cut(s) 15
TseFI GTSAC 2 cut(s) 6, 163
TseI GCWGC 1 cut(s) 259
Tsp45I GTSAC 2 cut(s) 6, 163
TspDTI ATGAA 1 cut(s) 266
TspRI CASTG 1 cut(s) 15
XagI CCTNNNNNAGG 1 cut(s) 63
XapI RAATTY 1 cut(s) 38
XceI RCATGY 2 cut(s) 259, 366
XmnI GAANNNNTTC 1 cut(s) 270
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.