MD04G1053700.v1.1

Novel plant snare

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0013342
Physical Location & Seq
Reverse (-)
6355505 .. 6361330
5826 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1053700.v1.1.491

Sequence Viewer

Length: 786 bp
ATGGATCCGTTATCTGCAATCAGCGAAGAGCTGGCGGAGATCGACGGACAAATCGCCGATATCTTCCGTGCATTGTCAAATGGGTTTCAAAAGCTGGAGAAGATTAAGGACTCGAATAGGCAGAGTAGGCAGCTGGAAGAGCTCACTGACAAGATGCGAGACTGTAAGAGGCTTATCAAAGAATTTGATCGAGAAGTCAAGAATATGGAGAGAATAAATGACCCAAATACCAGTAGAATGCTGAATGAGAAAAAGCAGTCAATGATCAAAGAGTTGAATTCATATGTGGCTCTGAAGAAACAATACGCATCAAACCTTGAAAACAAGAAAATTGATCTCTTTGATGGGCCGGCAGAAGACTTTGGGGAACAAAATGTCTTGCTAGCCTCGGCTATGACGAATCAACAACTTATGGATAATGGAAACCAAATGATGAATGAGACAGATCAAGCCATTGAGAGATCAAAAAAGGTTGTTCATGAAACCATCAATGTTGGAACAGAGACAACACAAGCTCTCAAGGCTCAAACTGAACAAATGAGCAGGATTGTCAACGAGCTGGACTCTATTCATTTCTCAATCAAGAAAGCTTCTAAGCTGGTCAAGGAAATTGGTAGGCAGGTTGCAACTGATAGATGTATTATGGGATTACTTGTCTTGATTGTCATTGGGGTCATAGCCATCATTATTGTGAAGCTGGTTCATCCAAACAACAAGAACATTCCAGATATTCCTGGATTAGCCCCTCCTGCAATGACTCGAAAGTTACTGTGGAATCCATACTGA
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

262

Amino Acids

29.64

Weight (kDa)

6.86

Isoelectric Point (pI)

34.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
V-SNARE_C PF12352 147 - 206 2.4e-06 Snare region anchored in the vesicle membrane C-terminus
Sec20 PF03908 150 - 223 1.1e-06 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 610
AciI CCGC 1 cut(s) 35
AclWI GGATC 1 cut(s) 12
AcsI RAATTY 2 cut(s) 182, 277
AcuI CTGAAG 1 cut(s) 314
AgsI TTSAA 3 cut(s) 89, 277, 320
AjnI CCWGG 1 cut(s) 733
AluBI AGCT 9 cut(s) 31, 94, 133, 142, 515, 559, 590, 598, 697
AluI AGCT 9 cut(s) 31, 94, 133, 142, 515, 559, 590, 598, 697
Alw21I GWGCWC 1 cut(s) 144
Alw26I GTCTC 3 cut(s) 153, 434, 497
AlwI GGATC 1 cut(s) 12
AoxI GGCC 1 cut(s) 347
ApeKI GCWGC 1 cut(s) 130
ApoI RAATTY 2 cut(s) 182, 277
AspS9I GGNCC 1 cut(s) 347
AsuNHI GCTAGC 1 cut(s) 382
BamHI GGATCC 1 cut(s) 4
BanII GRGCYC 1 cut(s) 144
BarI GAAGNNNNNNTAC 2 cut(s) 287, 319
BbsI GAAGAC 1 cut(s) 363
Bbv12I GWGCWC 1 cut(s) 144
BbvI GCAGC 1 cut(s) 142
BccI CCATC 3 cut(s) 338, 494, 689
BciT130I CCWGG 1 cut(s) 735
BclI TGATCA 1 cut(s) 264
BcoDI GTCTC 3 cut(s) 153, 434, 497
BfaI CTAG 1 cut(s) 383
BfuAI ACCTGC 1 cut(s) 610
BisI GCNGC 1 cut(s) 131
BlsI GCNGC 1 cut(s) 132
Bme1390I CCNGG 1 cut(s) 735
BmgT120I GGNCC 1 cut(s) 347
BmiI GGNNCC 1 cut(s) 6
BmrFI CCNGG 1 cut(s) 735
BmsI GCATC 2 cut(s) 144, 317
BmtI GCTAGC 1 cut(s) 386
BpiI GAAGAC 1 cut(s) 363
BplI GAGNNNNNCTC 2 cut(s) 548, 580
BpmI CTGGAG 1 cut(s) 116
BpuEI CTTGAG 1 cut(s) 503
BsaJI CCNNGG 1 cut(s) 387
Bse118I RCCGGY 1 cut(s) 349
Bse1I ACTGG 1 cut(s) 231
Bse3DI GCAATG 1 cut(s) 759
BseBI CCWGG 1 cut(s) 735
BseDI CCNNGG 1 cut(s) 387
BseGI GGATG 1 cut(s) 703
BseMI GCAATG 1 cut(s) 759
BseNI ACTGG 1 cut(s) 231
BseXI GCAGC 1 cut(s) 142
BshFI GGCC 1 cut(s) 349
BsiHKAI GWGCWC 1 cut(s) 144
BsiSI CCGG 1 cut(s) 350
BsmAI GTCTC 3 cut(s) 153, 434, 497
BsmI GAATGC 1 cut(s) 243
BsnI GGCC 1 cut(s) 349
Bsp1286I GDGCHC 1 cut(s) 144
Bsp143I GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
BspACI CCGC 1 cut(s) 35
BspANI GGCC 1 cut(s) 349
BspHI TCATGA 1 cut(s) 478
BspLI GGNNCC 1 cut(s) 6
BspMI ACCTGC 1 cut(s) 610
BspOI GCTAGC 1 cut(s) 386
BspPI GGATC 1 cut(s) 12
BspQI GCTCTTC 2 cut(s) 21, 132
BsrDI GCAATG 1 cut(s) 759
BsrFI RCCGGY 1 cut(s) 349
BsrI ACTGG 1 cut(s) 231
BssAI RCCGGY 1 cut(s) 349
BssECI CCNNGG 1 cut(s) 387
BssMI GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
Bst2UI CCWGG 1 cut(s) 735
Bst4CI ACNGT 2 cut(s) 164, 771
Bst6I CTCTTC 2 cut(s) 21, 132
BstC8I GCNNGC 3 cut(s) 33, 351, 384
BstDEI CTNAG 1 cut(s) 594
BstF5I GGATG 1 cut(s) 703
BstKTI GATC 7 cut(s) 7, 42, 190, 267, 337, 448, 464
BstMAI GTCTC 3 cut(s) 153, 434, 497
BstMBI GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
BstMWI GCNNNNNNNGC 4 cut(s) 127, 139, 521, 749
BstNI CCWGG 1 cut(s) 735
BstSCI CCNGG 1 cut(s) 733
BstV1I GCAGC 1 cut(s) 142
BstV2I GAAGAC 1 cut(s) 363
BstX2I RGATCY 1 cut(s) 4
BstYI RGATCY 1 cut(s) 4
BsuRI GGCC 1 cut(s) 349
BtsCI GGATG 1 cut(s) 703
BtsIMutI CAGTG 1 cut(s) 144
BveI ACCTGC 1 cut(s) 610
Cac8I GCNNGC 3 cut(s) 33, 351, 384
CciI TCATGA 1 cut(s) 478
Cfr10I RCCGGY 1 cut(s) 349
Cfr13I GGNCC 1 cut(s) 347
CviAII CATG 1 cut(s) 479
DdeI CTNAG 1 cut(s) 594
DpnI GATC 7 cut(s) 6, 41, 189, 266, 336, 447, 463
DpnII GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
Eam1104I CTCTTC 2 cut(s) 21, 132
EarI CTCTTC 2 cut(s) 21, 132
EciI GGCGGA 1 cut(s) 50
Ecl136II GAGCTC 1 cut(s) 142
Eco24I GRGCYC 1 cut(s) 144
Eco32I GATATC 1 cut(s) 61
Eco53kI GAGCTC 1 cut(s) 142
Eco57I CTGAAG 1 cut(s) 314
EcoICRI GAGCTC 1 cut(s) 142
EcoRI GAATTC 1 cut(s) 277
EcoRII CCWGG 1 cut(s) 733
EcoRV GATATC 1 cut(s) 61
EcoT38I GRGCYC 1 cut(s) 144
FaeI CATG 1 cut(s) 482
FaiI YATR 9 cut(s) 206, 283, 285, 395, 413, 480, 644, 677, 781
FatI CATG 1 cut(s) 478
FauNDI CATATG 1 cut(s) 283
FbaI TGATCA 1 cut(s) 264
Fnu4HI GCNGC 1 cut(s) 131
FokI GGATG 1 cut(s) 690
FriOI GRGCYC 1 cut(s) 144
Fsp4HI GCNGC 1 cut(s) 131
FspBI CTAG 1 cut(s) 383
GluI GCNGC 1 cut(s) 131
GsuI CTGGAG 1 cut(s) 116
HaeIII GGCC 1 cut(s) 349
HapII CCGG 1 cut(s) 350
Hin1II CATG 1 cut(s) 482
HincII GTYRAC 1 cut(s) 553
HindII GTYRAC 1 cut(s) 553
HindIII AAGCTT 1 cut(s) 588
HinfI GANTC 5 cut(s) 110, 400, 563, 757, 775
HpaII CCGG 1 cut(s) 350
Hpy166II GTNNAC 1 cut(s) 553
Hpy188I TCNGA 1 cut(s) 294
Hpy188III TCNNGA 6 cut(s) 191, 199, 479, 583, 658, 725
Hpy8I GTNNAC 1 cut(s) 553
Hpy99I CGWCG 1 cut(s) 47
HpyCH4III ACNGT 2 cut(s) 164, 771
HpyCH4V TGCA 4 cut(s) 17, 71, 626, 752
HpyF10VI GCNNNNNNNGC 4 cut(s) 127, 139, 521, 749
HpyF3I CTNAG 1 cut(s) 594
Hsp92II CATG 1 cut(s) 482
KroI GCCGGC 1 cut(s) 349
KroNI GCCGGC 1 cut(s) 351
Ksp22I TGATCA 1 cut(s) 264
Kzo9I GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
LguI GCTCTTC 2 cut(s) 21, 132
Lsp1109I GCAGC 1 cut(s) 142
LweI GCATC 2 cut(s) 144, 317
MaeI CTAG 1 cut(s) 383
MaeIII GTNAC 1 cut(s) 765
MalI GATC 7 cut(s) 6, 41, 189, 266, 336, 447, 463
MboI GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
MboII GAAGA 6 cut(s) 38, 55, 112, 149, 307, 368
MflI RGATCY 1 cut(s) 4
MhlI GDGCHC 1 cut(s) 144
MluCI AATT 4 cut(s) 182, 277, 330, 609
MlyI GAGTC 3 cut(s) 104, 557, 751
MmeI TCCRAC 1 cut(s) 475
MnlI CCTC 3 cut(s) 162, 397, 756
MroNI GCCGGC 1 cut(s) 349
MseI TTAA 1 cut(s) 105
MslI CAYNNNNRTG 1 cut(s) 689
MspA1I CMGCKG 1 cut(s) 133
MspI CCGG 1 cut(s) 350
MspR9I CCNGG 1 cut(s) 735
Mva1269I GAATGC 1 cut(s) 243
MvaI CCWGG 1 cut(s) 735
MwoI GCNNNNNNNGC 4 cut(s) 127, 139, 521, 749
NaeI GCCGGC 1 cut(s) 351
NdeI CATATG 1 cut(s) 283
NdeII GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
NgoMIV GCCGGC 1 cut(s) 349
NheI GCTAGC 1 cut(s) 382
NlaIII CATG 1 cut(s) 482
NlaIV GGNNCC 1 cut(s) 6
NmeAIII GCCGAG 1 cut(s) 368
PagI TCATGA 1 cut(s) 478
PciSI GCTCTTC 2 cut(s) 21, 132
PcsI WCGNNNNNNNCGW 1 cut(s) 395
PctI GAATGC 1 cut(s) 243
PdiI GCCGGC 1 cut(s) 351
PfeI GAWTC 2 cut(s) 400, 775
PfoI TCCNGGA 1 cut(s) 733
PkrI GCNGC 1 cut(s) 132
PleI GAGTC 3 cut(s) 104, 557, 751
PpsI GAGTC 3 cut(s) 104, 557, 751
Psp124BI GAGCTC 1 cut(s) 144
Psp6I CCWGG 1 cut(s) 733
PspGI CCWGG 1 cut(s) 733
PspN4I GGNNCC 1 cut(s) 6
PspPI GGNCC 1 cut(s) 347
PsuI RGATCY 1 cut(s) 4
PvuII CAGCTG 1 cut(s) 133
RseI CAYNNNNRTG 1 cut(s) 689
SacI GAGCTC 1 cut(s) 144
SapI GCTCTTC 2 cut(s) 21, 132
SaqAI TTAA 1 cut(s) 105
SatI GCNGC 1 cut(s) 131
Sau3AI GATC 7 cut(s) 4, 39, 187, 264, 334, 445, 461
Sau96I GGNCC 1 cut(s) 347
SchI GAGTC 3 cut(s) 104, 557, 751
ScrFI CCNGG 1 cut(s) 735
SduI GDGCHC 1 cut(s) 144
SfaNI GCATC 2 cut(s) 144, 317
SmiMI CAYNNNNRTG 1 cut(s) 689
SmlI CTYRAG 1 cut(s) 518
SmoI CTYRAG 1 cut(s) 518
Sse9I AATT 4 cut(s) 182, 277, 330, 609
SsiI CCGC 1 cut(s) 35
SspMI CTAG 1 cut(s) 383
SstI GAGCTC 1 cut(s) 144
StyD4I CCNGG 1 cut(s) 733
TaaI ACNGT 2 cut(s) 164, 771
TaqI TCGA 4 cut(s) 42, 113, 190, 760
TasI AATT 4 cut(s) 182, 277, 330, 609
TfiI GAWTC 2 cut(s) 400, 775
Tru1I TTAA 1 cut(s) 105
Tru9I TTAA 1 cut(s) 105
TscAI CASTG 1 cut(s) 151
TseI GCWGC 1 cut(s) 130
TspDTI ATGAA 6 cut(s) 270, 449, 467, 495, 560, 692
TspGWI ACGGA 2 cut(s) 56, 60
TspRI CASTG 1 cut(s) 151
XapI RAATTY 2 cut(s) 182, 277
XspI CTAG 1 cut(s) 383
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.