pycom11g03010

Novel plant snare

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr11
OG0013342
Physical Location & Seq
Forward (+)
2368587 .. 2372059
3473 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 633 bp
ATGCGAGACTGTAAGAGGCTTATCAAAGAATTTGACAGAGAGGTGAAGAATATGGAGAGAATAAATGATCCAAATACCAGTAGAATGCTGAATGAGAAAAAGCAGTCGATGATTAAAGAGTTGAATTCATATGTGGCTCTGAAAAAACAGTATGCATCAAACCTTGGCAACAAGAAAATTGATCTCTTTGATGGACCGGCCGAAGACTTGGGGGAACAGAATGTCTTGCTAGCCTCGGCTATGACGAATCAACAACTTATTGATAATGGAAACCAAATGATGGATGAGACAGATCAATCCATTGAGAGATCAAAGAAGGTTGTTCATGAAACCATCAATGTTGGAACAGAGACAGCACAAGCTCTCAAGGCTCAAACGGAACAAATGAGCAGGATAGTCAACGAGCTGGACTCTATACATTTCTCAATCAAGAAAGCTTCTAAGCTGGTCAGGGAAATTGGTAGGCAGGTTGCAACTGATAGATGTATTATGGGATTACTCTTCTTGATTGTCGTCGGAGTCATAGCCATCATTATTGTGAAGCTGGTTCATCCAAACAACAAGGATATTCGAGATATTCCTGGATTAGCCCCTCCCGCAATGACTCGAAAGCTGCTGTGGAATTCTTATTGA
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
Sec20

Protein Analysis

211

Amino Acids

23.84

Weight (kDa)

9.0

Isoelectric Point (pI)

31.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
V-SNARE_C PF12352 96 - 155 8.4e-07 Snare region anchored in the vesicle membrane C-terminus
Sec20 PF03908 99 - 174 4.2e-07 Sec20
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: OG0013342)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G35190
fragaria_vesca FvH4_5g20760 FvH4_5g20760
malus_domestica MD04G1053700.v1.1 MD11G1036500.v1.1
prunus_persica Prupe.5G052300_v2.0.a1 Prupe.5G052300_v2.0.a1
pyrus_communis pycom04g04680 pycom11g03010
rosa_chinensis RchiOBHm_Chr7g0206541
rosa_laevigata RLG00000003304
rosa_multiflora Rmu_sc0005065.1_g000056
rosa_roxburghii Rroxscaffold_3G00251420
rosa_rugosa Rorug07G0098300 Rorug07G0098400
rosa_samantha Rh7AG229800 Rh7CG244700
rosa_wichuraiana Rw7G019810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 457
AccB7I CCANNNNNTGG 1 cut(s) 280
AciI CCGC 1 cut(s) 597
AclWI GGATC 1 cut(s) 62
AcoI YGGCCR 1 cut(s) 198
AcsI RAATTY 3 cut(s) 29, 124, 622
AfiI CCNNNNNNNGG 1 cut(s) 280
AgsI TTSAA 1 cut(s) 124
AjnI CCWGG 1 cut(s) 580
AluBI AGCT 6 cut(s) 362, 406, 437, 445, 544, 613
AluI AGCT 6 cut(s) 362, 406, 437, 445, 544, 613
Alw26I GTCTC 2 cut(s) 281, 344
AlwI GGATC 1 cut(s) 62
AoxI GGCC 1 cut(s) 198
ApeKI GCWGC 1 cut(s) 613
ApoI RAATTY 3 cut(s) 29, 124, 622
AspS9I GGNCC 1 cut(s) 194
AsuHPI GGTGA 1 cut(s) 55
AsuNHI GCTAGC 1 cut(s) 229
AvaII GGWCC 1 cut(s) 194
BbsI GAAGAC 1 cut(s) 210
BbvI GCAGC 1 cut(s) 600
BccI CCATC 4 cut(s) 185, 274, 341, 536
BciT130I CCWGG 1 cut(s) 582
BcoDI GTCTC 2 cut(s) 281, 344
BfaI CTAG 1 cut(s) 230
BfuAI ACCTGC 1 cut(s) 457
BisI GCNGC 1 cut(s) 614
BlsI GCNGC 1 cut(s) 615
Bme1390I CCNGG 1 cut(s) 582
Bme18I GGWCC 1 cut(s) 194
BmgT120I GGNCC 1 cut(s) 194
BmrFI CCNGG 1 cut(s) 582
BmsI GCATC 1 cut(s) 164
BmtI GCTAGC 1 cut(s) 233
BpiI GAAGAC 1 cut(s) 210
BplI GAGNNNNNCTC 2 cut(s) 395, 427
BpuEI CTTGAG 1 cut(s) 350
BsaJI CCNNGG 2 cut(s) 163, 234
Bsc4I CCNNNNNNNGG 1 cut(s) 280
Bse118I RCCGGY 1 cut(s) 196
Bse1I ACTGG 1 cut(s) 78
Bse3DI GCAATG 1 cut(s) 606
BseBI CCWGG 1 cut(s) 582
BseDI CCNNGG 2 cut(s) 163, 234
BseGI GGATG 2 cut(s) 289, 550
BseLI CCNNNNNNNGG 1 cut(s) 280
BseMI GCAATG 1 cut(s) 606
BseNI ACTGG 1 cut(s) 78
BseX3I CGGCCG 1 cut(s) 198
BseXI GCAGC 1 cut(s) 600
Bsh1285I CGRYCG 1 cut(s) 201
BshFI GGCC 1 cut(s) 200
BsiEI CGRYCG 1 cut(s) 201
BsiSI CCGG 1 cut(s) 197
BslI CCNNNNNNNGG 1 cut(s) 280
BsmAI GTCTC 2 cut(s) 281, 344
BsmI GAATGC 1 cut(s) 90
BsnI GGCC 1 cut(s) 200
Bsp143I GATC 4 cut(s) 67, 181, 292, 308
BspACI CCGC 1 cut(s) 597
BspANI GGCC 1 cut(s) 200
BspHI TCATGA 1 cut(s) 325
BspMI ACCTGC 1 cut(s) 457
BspOI GCTAGC 1 cut(s) 233
BspPI GGATC 1 cut(s) 62
BsrDI GCAATG 1 cut(s) 606
BsrFI RCCGGY 1 cut(s) 196
BsrI ACTGG 1 cut(s) 78
BssAI RCCGGY 1 cut(s) 196
BssECI CCNNGG 2 cut(s) 163, 234
BssMI GATC 4 cut(s) 67, 181, 292, 308
BssT1I CCWWGG 1 cut(s) 163
Bst2UI CCWGG 1 cut(s) 582
Bst4CI ACNGT 2 cut(s) 11, 150
Bst6I CTCTTC 1 cut(s) 506
BstC8I GCNNGC 1 cut(s) 231
BstDEI CTNAG 1 cut(s) 441
BstF5I GGATG 2 cut(s) 289, 550
BstKTI GATC 4 cut(s) 70, 184, 295, 311
BstMAI GTCTC 2 cut(s) 281, 344
BstMBI GATC 4 cut(s) 67, 181, 292, 308
BstMCI CGRYCG 1 cut(s) 201
BstMWI GCNNNNNNNGC 2 cut(s) 368, 596
BstNI CCWGG 1 cut(s) 582
BstSCI CCNGG 1 cut(s) 580
BstV1I GCAGC 1 cut(s) 600
BstV2I GAAGAC 1 cut(s) 210
BstZI CGGCCG 1 cut(s) 198
BsuRI GGCC 1 cut(s) 200
BtsCI GGATG 2 cut(s) 289, 550
BveI ACCTGC 1 cut(s) 457
Cac8I GCNNGC 1 cut(s) 231
CciI TCATGA 1 cut(s) 325
Cfr10I RCCGGY 1 cut(s) 196
Cfr13I GGNCC 1 cut(s) 194
CviAII CATG 1 cut(s) 326
DdeI CTNAG 1 cut(s) 441
DpnI GATC 4 cut(s) 69, 183, 294, 310
DpnII GATC 4 cut(s) 67, 181, 292, 308
EaeI YGGCCR 1 cut(s) 198
EagI CGGCCG 1 cut(s) 198
Eam1104I CTCTTC 1 cut(s) 506
EarI CTCTTC 1 cut(s) 506
EclXI CGGCCG 1 cut(s) 198
Eco130I CCWWGG 1 cut(s) 163
Eco47I GGWCC 1 cut(s) 194
Eco52I CGGCCG 1 cut(s) 198
EcoRI GAATTC 2 cut(s) 124, 622
EcoRII CCWGG 1 cut(s) 580
EcoT14I CCWWGG 1 cut(s) 163
EcoT22I ATGCAT 1 cut(s) 157
ErhI CCWWGG 1 cut(s) 163
FaeI CATG 1 cut(s) 329
FaiI YATR 9 cut(s) 53, 130, 132, 153, 242, 327, 416, 491, 524
FatI CATG 1 cut(s) 325
FauI CCCGC 1 cut(s) 604
FauNDI CATATG 1 cut(s) 130
Fnu4HI GCNGC 1 cut(s) 614
FokI GGATG 2 cut(s) 296, 537
Fsp4HI GCNGC 1 cut(s) 614
FspBI CTAG 1 cut(s) 230
GluI GCNGC 1 cut(s) 614
HaeIII GGCC 1 cut(s) 200
HapII CCGG 1 cut(s) 197
Hin1II CATG 1 cut(s) 329
HincII GTYRAC 1 cut(s) 400
HindII GTYRAC 1 cut(s) 400
HindIII AAGCTT 1 cut(s) 435
HinfI GANTC 4 cut(s) 247, 410, 519, 604
HpaII CCGG 1 cut(s) 197
HphI GGTGA 1 cut(s) 55
Hpy166II GTNNAC 1 cut(s) 400
Hpy188I TCNGA 2 cut(s) 141, 518
Hpy188III TCNNGA 4 cut(s) 326, 430, 505, 572
Hpy8I GTNNAC 1 cut(s) 400
Hpy99I CGWCG 1 cut(s) 518
HpyAV CCTTC 1 cut(s) 310
HpyCH4III ACNGT 2 cut(s) 11, 150
HpyCH4V TGCA 2 cut(s) 155, 473
HpyF10VI GCNNNNNNNGC 2 cut(s) 368, 596
HpyF3I CTNAG 1 cut(s) 441
Hsp92II CATG 1 cut(s) 329
Kzo9I GATC 4 cut(s) 67, 181, 292, 308
Lsp1109I GCAGC 1 cut(s) 600
LweI GCATC 1 cut(s) 164
MaeI CTAG 1 cut(s) 230
MalI GATC 4 cut(s) 69, 183, 294, 310
MboI GATC 4 cut(s) 67, 181, 292, 308
MboII GAAGA 3 cut(s) 58, 215, 493
MluCI AATT 5 cut(s) 29, 124, 177, 456, 622
MlyI GAGTC 3 cut(s) 404, 528, 598
MmeI TCCRAC 2 cut(s) 322, 496
MnlI CCTC 4 cut(s) 9, 34, 244, 603
Mph1103I ATGCAT 1 cut(s) 157
MseI TTAA 1 cut(s) 114
MslI CAYNNNNRTG 1 cut(s) 536
MspI CCGG 1 cut(s) 197
MspR9I CCNGG 1 cut(s) 582
Mva1269I GAATGC 1 cut(s) 90
MvaI CCWGG 1 cut(s) 582
MwoI GCNNNNNNNGC 2 cut(s) 368, 596
NdeI CATATG 1 cut(s) 130
NdeII GATC 4 cut(s) 67, 181, 292, 308
NheI GCTAGC 1 cut(s) 229
NlaIII CATG 1 cut(s) 329
NmeAIII GCCGAG 1 cut(s) 215
NsiI ATGCAT 1 cut(s) 157
PagI TCATGA 1 cut(s) 325
PcsI WCGNNNNNNNCGW 1 cut(s) 242
PctI GAATGC 1 cut(s) 90
PfeI GAWTC 1 cut(s) 247
PflMI CCANNNNNTGG 1 cut(s) 280
PfoI TCCNGGA 1 cut(s) 580
PkrI GCNGC 1 cut(s) 615
PleI GAGTC 3 cut(s) 404, 527, 598
PpsI GAGTC 3 cut(s) 404, 527, 598
Psp6I CCWGG 1 cut(s) 580
PspGI CCWGG 1 cut(s) 580
PspPI GGNCC 1 cut(s) 194
RseI CAYNNNNRTG 1 cut(s) 536
SaqAI TTAA 1 cut(s) 114
SatI GCNGC 1 cut(s) 614
Sau3AI GATC 4 cut(s) 67, 181, 292, 308
Sau96I GGNCC 1 cut(s) 194
SchI GAGTC 3 cut(s) 404, 528, 598
ScrFI CCNGG 1 cut(s) 582
SfaNI GCATC 1 cut(s) 164
SinI GGWCC 1 cut(s) 194
SmiMI CAYNNNNRTG 1 cut(s) 536
SmlI CTYRAG 1 cut(s) 365
SmoI CTYRAG 1 cut(s) 365
Sse9I AATT 5 cut(s) 29, 124, 177, 456, 622
SsiI CCGC 1 cut(s) 597
SspMI CTAG 1 cut(s) 230
StyD4I CCNGG 1 cut(s) 580
StyI CCWWGG 1 cut(s) 163
TaaI ACNGT 2 cut(s) 11, 150
TaqI TCGA 3 cut(s) 107, 571, 607
TasI AATT 5 cut(s) 29, 124, 177, 456, 622
TfiI GAWTC 1 cut(s) 247
Tru1I TTAA 1 cut(s) 114
Tru9I TTAA 1 cut(s) 114
TseI GCWGC 1 cut(s) 613
TspDTI ATGAA 4 cut(s) 117, 314, 342, 539
TspGWI ACGGA 1 cut(s) 392
Van91I CCANNNNNTGG 1 cut(s) 280
VpaK11BI GGWCC 1 cut(s) 194
XapI RAATTY 3 cut(s) 29, 124, 622
XspI CTAG 1 cut(s) 230
Zsp2I ATGCAT 1 cut(s) 157
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.