pycom10g02510

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr10
OG0001028
Physical Location & Seq
Reverse (-)
2879289 .. 2879935
647 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom10g02510.1

Sequence Viewer

Length: 474 bp
ATGCTCCAACAACCTGGCTTCTGGACTCCGGAGCCAACACTCACATTACTAATGATCCTGGCCAACTTACCAATGCATATGAGTACACATGCACATATCAAGTTAATAGTGGTCAAGGATATCCGCTTGGGGAGGACCCTTTTATCAGGCCGGAGTAACATTGGTGTTTATCATTATGCAAGTTTTAATTCAAATAAAAGACATGAACTGTTTTCATGCATAGGAGTTAGGGTCGATGATCGCATTTGGCACTCCAAACTTGGTCATCCATCATCATTTATTTTAAAACATTTAGTTTCCAGTAGTAAAGTGCCTCTTACTAGGCACCATTTCAATTCTATATGTCATTCATACCCTTTGGGCAAAAGTAAGAAATTGCCATTTTTACCATCAAATTCCATTTCTCATTTTCCTTTACAACTTATTCATTATGATGTATGGACGTCACCAACTCTGTCAATTTCTGGTTTTTGA
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 Retrotran_gag_3 gag_pre-integrs

Protein Analysis

158

Amino Acids

17.86

Weight (kDa)

10.08

Isoelectric Point (pI)

64.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
gag_pre-integrs PF13976 71 - 123 1.4e-08 GAG-pre-integrase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 446
AccB1I GGYRCC 1 cut(s) 324
AccIII TCCGGA 1 cut(s) 28
AciI CCGC 1 cut(s) 124
AclWI GGATC 1 cut(s) 49
AcoI YGGCCR 1 cut(s) 60
AcsI RAATTY 1 cut(s) 394
AcyI GRCGYC 1 cut(s) 443
AfaI GTAC 1 cut(s) 85
AgsI TTSAA 2 cut(s) 192, 334
AjnI CCWGG 2 cut(s) 13, 57
AlwI GGATC 1 cut(s) 49
Aor13HI TCCGGA 1 cut(s) 28
AoxI GGCC 2 cut(s) 60, 148
ApoI RAATTY 1 cut(s) 394
AspS9I GGNCC 1 cut(s) 135
AsuHPI GGTGA 1 cut(s) 438
AvaII GGWCC 1 cut(s) 135
BalI TGGCCA 1 cut(s) 62
BanI GGYRCC 1 cut(s) 324
BccI CCATC 2 cut(s) 277, 397
BciT130I CCWGG 2 cut(s) 15, 59
BfaI CTAG 1 cut(s) 321
Bme1390I CCNGG 2 cut(s) 15, 59
Bme18I GGWCC 1 cut(s) 135
BmgT120I GGNCC 1 cut(s) 135
BmiI GGNNCC 3 cut(s) 33, 137, 326
BmrFI CCNGG 2 cut(s) 15, 59
BsaHI GRCGYC 1 cut(s) 443
BsaWI WCCGGW 1 cut(s) 28
BsaXI ACNNNNNCTCC 2 cut(s) 216, 246
Bse1I ACTGG 1 cut(s) 300
BseAI TCCGGA 1 cut(s) 28
BseBI CCWGG 2 cut(s) 15, 59
BseGI GGATG 1 cut(s) 265
BseNI ACTGG 1 cut(s) 300
BshFI GGCC 2 cut(s) 62, 150
BshNI GGYRCC 1 cut(s) 324
BsiSI CCGG 2 cut(s) 29, 151
BsnI GGCC 2 cut(s) 62, 150
Bsp13I TCCGGA 1 cut(s) 28
Bsp143I GATC 2 cut(s) 54, 238
BspACI CCGC 1 cut(s) 124
BspANI GGCC 2 cut(s) 62, 150
BspEI TCCGGA 1 cut(s) 28
BspLI GGNNCC 3 cut(s) 33, 137, 326
BspPI GGATC 1 cut(s) 49
BspT107I GGYRCC 1 cut(s) 324
BsrI ACTGG 1 cut(s) 300
BssMI GATC 2 cut(s) 54, 238
BssNI GRCGYC 1 cut(s) 443
Bst2UI CCWGG 2 cut(s) 15, 59
Bst4CI ACNGT 1 cut(s) 210
BstACI GRCGYC 1 cut(s) 443
BstF5I GGATG 1 cut(s) 265
BstKTI GATC 2 cut(s) 57, 241
BstMBI GATC 2 cut(s) 54, 238
BstNI CCWGG 2 cut(s) 15, 59
BstNSI RCATGY 1 cut(s) 92
BstSCI CCNGG 2 cut(s) 13, 57
BstXI CCANNNNNNTGG 1 cut(s) 14
BsuRI GGCC 2 cut(s) 62, 150
BtsCI GGATG 1 cut(s) 265
Cfr13I GGNCC 1 cut(s) 135
Csp6I GTAC 1 cut(s) 84
CviAII CATG 3 cut(s) 89, 203, 216
CviJI RGCY 4 cut(s) 18, 34, 62, 150
CviKI_1 RGCY 4 cut(s) 18, 34, 62, 150
CviQI GTAC 1 cut(s) 84
DpnI GATC 2 cut(s) 56, 240
DpnII GATC 2 cut(s) 54, 238
DraI TTTAAA 1 cut(s) 285
EaeI YGGCCR 1 cut(s) 60
Eco32I GATATC 1 cut(s) 121
Eco47I GGWCC 1 cut(s) 135
EcoO109I RGGNCCY 1 cut(s) 135
EcoRII CCWGG 2 cut(s) 13, 57
EcoRV GATATC 1 cut(s) 121
EcoT22I ATGCAT 2 cut(s) 78, 221
FaeI CATG 3 cut(s) 92, 206, 219
FalI AAGNNNNNCTT 2 cut(s) 300, 332
FatI CATG 3 cut(s) 88, 202, 215
FauNDI CATATG 1 cut(s) 78
FokI GGATG 1 cut(s) 252
FspBI CTAG 1 cut(s) 321
HaeIII GGCC 2 cut(s) 62, 150
HapII CCGG 2 cut(s) 29, 151
Hin1I GRCGYC 1 cut(s) 443
Hin1II CATG 3 cut(s) 92, 206, 219
HinfI GANTC 1 cut(s) 25
HpaII CCGG 2 cut(s) 29, 151
HphI GGTGA 1 cut(s) 438
Hpy166II GTNNAC 1 cut(s) 86
Hpy188III TCNNGA 2 cut(s) 22, 29
Hpy8I GTNNAC 1 cut(s) 86
HpyCH4III ACNGT 1 cut(s) 210
HpyCH4IV ACGT 1 cut(s) 443
HpyCH4V TGCA 4 cut(s) 76, 92, 179, 219
HpySE526I ACGT 1 cut(s) 443
Hsp92I GRCGYC 1 cut(s) 443
Hsp92II CATG 3 cut(s) 92, 206, 219
Kpn2I TCCGGA 1 cut(s) 28
Kzo9I GATC 2 cut(s) 54, 238
LmnI GCTCC 2 cut(s) 9, 31
LpnPI CCDG 9 cut(s) 7, 27, 42, 44, 71, 132, 164, 313, 450
MaeI CTAG 1 cut(s) 321
MaeII ACGT 1 cut(s) 443
MaeIII GTNAC 2 cut(s) 155, 444
MalI GATC 2 cut(s) 56, 240
MboI GATC 2 cut(s) 54, 238
MlsI TGGCCA 1 cut(s) 62
MluCI AATT 5 cut(s) 187, 334, 374, 394, 459
MluNI TGGCCA 1 cut(s) 62
MlyI GAGTC 1 cut(s) 19
MmeI TCCRAC 1 cut(s) 31
MnlI CCTC 2 cut(s) 126, 324
Mox20I TGGCCA 1 cut(s) 62
Mph1103I ATGCAT 2 cut(s) 78, 221
MroI TCCGGA 1 cut(s) 28
MscI TGGCCA 1 cut(s) 62
MseI TTAA 3 cut(s) 104, 186, 284
MslI CAYNNNNRTG 1 cut(s) 432
Msp20I TGGCCA 1 cut(s) 62
MspI CCGG 2 cut(s) 29, 151
MspR9I CCNGG 2 cut(s) 15, 59
MvaI CCWGG 2 cut(s) 15, 59
NdeI CATATG 1 cut(s) 78
NdeII GATC 2 cut(s) 54, 238
NlaIII CATG 3 cut(s) 92, 206, 219
NlaIV GGNNCC 3 cut(s) 33, 137, 326
NmuCI GTSAC 1 cut(s) 444
NsiI ATGCAT 2 cut(s) 78, 221
NspI RCATGY 1 cut(s) 92
PleI GAGTC 1 cut(s) 19
PpsI GAGTC 1 cut(s) 19
PpuMI RGGWCCY 1 cut(s) 135
Psp5II RGGWCCY 1 cut(s) 135
Psp6I CCWGG 2 cut(s) 13, 57
PspGI CCWGG 2 cut(s) 13, 57
PspN4I GGNNCC 3 cut(s) 33, 137, 326
PspPI GGNCC 1 cut(s) 135
PspPPI RGGWCCY 1 cut(s) 135
RsaI GTAC 1 cut(s) 85
RsaNI GTAC 1 cut(s) 84
RseI CAYNNNNRTG 1 cut(s) 432
SaqAI TTAA 3 cut(s) 104, 186, 284
Sau3AI GATC 2 cut(s) 54, 238
Sau96I GGNCC 1 cut(s) 135
SchI GAGTC 1 cut(s) 19
ScrFI CCNGG 2 cut(s) 15, 59
SetI ASST 2 cut(s) 16, 446
SinI GGWCC 1 cut(s) 135
SmiMI CAYNNNNRTG 1 cut(s) 432
Sse9I AATT 5 cut(s) 187, 334, 374, 394, 459
SsiI CCGC 1 cut(s) 124
SspMI CTAG 1 cut(s) 321
StyD4I CCNGG 2 cut(s) 13, 57
TaaI ACNGT 1 cut(s) 210
TaiI ACGT 1 cut(s) 446
TaqI TCGA 1 cut(s) 234
TasI AATT 5 cut(s) 187, 334, 374, 394, 459
TatI WGTACW 1 cut(s) 83
Tru1I TTAA 3 cut(s) 104, 186, 284
Tru9I TTAA 3 cut(s) 104, 186, 284
TseFI GTSAC 1 cut(s) 444
Tsp45I GTSAC 1 cut(s) 444
TspDTI ATGAA 4 cut(s) 204, 219, 339, 416
VpaK11BI GGWCC 1 cut(s) 135
XapI RAATTY 1 cut(s) 394
XceI RCATGY 1 cut(s) 92
XspI CTAG 1 cut(s) 321
ZraI GACGTC 1 cut(s) 444
Zsp2I ATGCAT 2 cut(s) 78, 221
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.