Rroxscaffold_3G00251420

Novel plant snare

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0013342
Physical Location & Seq
Reverse (-)
45308131 .. 45314715
6585 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00251420.1

Sequence Viewer

Length: 786 bp
ATGGATCCGTTATCTGCAATCAGCGAGGAGCTGGCGGAGATCGACGGCCAAATCGCCGACGTCTTCCGTGCGTTATCAAATGGGTTTCAGAAGGTGGAGAAGATTAAGGATTCGAACAGGCAGAGCCGGCAGCTGGAAGATCTCACTGATAAGATGCGGGATTGTAAGAGACTTATCAAAGAGTTTGACAAGGAAGTAAAGAATATGGAGAGACGAATTGATCCAGACACAAGTAGAATGCTGAGTGAGAAAAAGCAATCAATGATCAAAGAGTTGAACTCATATGTGGCTTTGAAAAAACAATATGCAACAAATCTTGAAAACAAGAAAGTGGATCTCTTTGATGCACCAGCTAACGAATACGGGGAACAAAATGTGTTGCTTGCCTCGGGTATGACAAATCAGCAACTTATTGATAATGGACACCAAATGATGGATGAGACTGATCAAGCCATCGATAGAGCACAAAAGGTTGTTCATGAGACTATCAATGTTGGAACAGAGACAGCAGCAACTCTCAAGGCTCAAACTGAACAAATGAGTAGGATTGTTAACGAGCTGGACTCTATCCATTTCTCAATCAAGAAGGCTACCAAGCTGGTGAAGGAAATTGGTAGGCAGGTTGCAACTGATAGGTGTATTATGGGATTTCTTGTCCTTATTGTCATTGGAGTCATAGCCATCATCATTGTGAAGATCGTTCATCCGAACAACAAAGACATTCGAGATATTCCTGGGCTTGCCCCTCCTGCGATGAACCGAAAATTACTGTGGAGTCCTTATTGA
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

261

Amino Acids

29.61

Weight (kDa)

6.47

Isoelectric Point (pI)

32.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sec20 PF03908 151 - 223 1.8e-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
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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)
AatII GACGTC 1 cut(s) 63
Acc36I ACCTGC 1 cut(s) 610
AccB7I CCANNNNNTGG 1 cut(s) 433
AciI CCGC 2 cut(s) 35, 157
AclWI GGATC 3 cut(s) 12, 215, 342
AcoI YGGCCR 1 cut(s) 46
AcyI GRCGYC 1 cut(s) 60
AfiI CCNNNNNNNGG 2 cut(s) 133, 433
AgsI TTSAA 3 cut(s) 277, 295, 320
AjnI CCWGG 1 cut(s) 733
AluBI AGCT 5 cut(s) 31, 133, 353, 559, 598
AluI AGCT 5 cut(s) 31, 133, 353, 559, 598
Alw21I GWGCWC 1 cut(s) 466
Alw26I GTCTC 5 cut(s) 163, 205, 434, 476, 497
AlwI GGATC 3 cut(s) 12, 215, 342
Ama87I CYCGRG 1 cut(s) 388
AoxI GGCC 1 cut(s) 46
ApeKI GCWGC 2 cut(s) 130, 509
AsuHPI GGTGA 1 cut(s) 613
AsuII TTCGAA 1 cut(s) 113
AvaI CYCGRG 1 cut(s) 388
BamHI GGATCC 1 cut(s) 4
BbsI GAAGAC 1 cut(s) 55
Bbv12I GWGCWC 1 cut(s) 466
BbvI GCAGC 2 cut(s) 142, 521
BccI CCATC 3 cut(s) 427, 461, 689
BceAI ACGGC 1 cut(s) 61
BciT130I CCWGG 1 cut(s) 735
BclI TGATCA 2 cut(s) 264, 445
BcoDI GTCTC 5 cut(s) 163, 205, 434, 476, 497
BfuAI ACCTGC 1 cut(s) 610
BglII AGATCT 1 cut(s) 139
BisI GCNGC 2 cut(s) 131, 510
BlsI GCNGC 2 cut(s) 132, 511
Bme1390I CCNGG 1 cut(s) 735
BmeT110I CYCGRG 1 cut(s) 388
BmiI GGNNCC 1 cut(s) 6
BmrFI CCNGG 1 cut(s) 735
BmsI GCATC 2 cut(s) 144, 334
BpiI GAAGAC 1 cut(s) 55
BplI GAGNNNNNCTC 4 cut(s) 263, 295, 548, 580
Bpu14I TTCGAA 1 cut(s) 113
BpuEI CTTGAG 1 cut(s) 503
Bsa29I ATCGAT 1 cut(s) 456
BsaHI GRCGYC 1 cut(s) 60
BsaJI CCNNGG 2 cut(s) 387, 734
Bsc4I CCNNNNNNNGG 2 cut(s) 133, 433
Bse118I RCCGGY 1 cut(s) 126
BseBI CCWGG 1 cut(s) 735
BseCI ATCGAT 1 cut(s) 456
BseDI CCNNGG 2 cut(s) 387, 734
BseGI GGATG 2 cut(s) 442, 703
BseLI CCNNNNNNNGG 2 cut(s) 133, 433
BseMII CTCAG 1 cut(s) 233
BseRI GAGGAG 1 cut(s) 41
BseXI GCAGC 2 cut(s) 142, 521
BshFI GGCC 1 cut(s) 48
BshVI ATCGAT 1 cut(s) 456
BsiHKAI GWGCWC 1 cut(s) 466
BsiHKCI CYCGRG 1 cut(s) 388
BsiSI CCGG 1 cut(s) 127
BslI CCNNNNNNNGG 2 cut(s) 133, 433
BsmAI GTCTC 5 cut(s) 163, 205, 434, 476, 497
BsmBI CGTCTC 1 cut(s) 205
BsmI GAATGC 1 cut(s) 243
BsnI GGCC 1 cut(s) 48
BsoBI CYCGRG 1 cut(s) 388
Bsp119I TTCGAA 1 cut(s) 113
Bsp1286I GDGCHC 1 cut(s) 466
Bsp143I GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
BspACI CCGC 2 cut(s) 35, 157
BspANI GGCC 1 cut(s) 48
BspCNI CTCAG 1 cut(s) 234
BspDI ATCGAT 1 cut(s) 456
BspHI TCATGA 1 cut(s) 478
BspLI GGNNCC 1 cut(s) 6
BspMI ACCTGC 1 cut(s) 610
BspPI GGATC 3 cut(s) 12, 215, 342
BspT104I TTCGAA 1 cut(s) 113
BsrFI RCCGGY 1 cut(s) 126
BssAI RCCGGY 1 cut(s) 126
BssECI CCNNGG 2 cut(s) 387, 734
BssMI GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
BssNI GRCGYC 1 cut(s) 60
Bst2UI CCWGG 1 cut(s) 735
Bst4CI ACNGT 1 cut(s) 771
BstACI GRCGYC 1 cut(s) 60
BstBI TTCGAA 1 cut(s) 113
BstC8I GCNNGC 4 cut(s) 33, 128, 384, 741
BstDEI CTNAG 1 cut(s) 242
BstF5I GGATG 2 cut(s) 442, 703
BstKTI GATC 8 cut(s) 7, 42, 142, 223, 267, 337, 448, 699
BstMAI GTCTC 5 cut(s) 163, 205, 434, 476, 497
BstMBI GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
BstMWI GCNNNNNNNGC 2 cut(s) 127, 749
BstNI CCWGG 1 cut(s) 735
BstSCI CCNGG 1 cut(s) 733
BstV1I GCAGC 2 cut(s) 142, 521
BstV2I GAAGAC 1 cut(s) 55
BstX2I RGATCY 3 cut(s) 4, 139, 334
BstYI RGATCY 3 cut(s) 4, 139, 334
Bsu15I ATCGAT 1 cut(s) 456
BsuRI GGCC 1 cut(s) 48
BsuTUI ATCGAT 1 cut(s) 456
BtgZI GCGATG 1 cut(s) 767
BtsCI GGATG 2 cut(s) 442, 703
BtsIMutI CAGTG 1 cut(s) 144
BveI ACCTGC 1 cut(s) 610
Cac8I GCNNGC 4 cut(s) 33, 128, 384, 741
CciI TCATGA 1 cut(s) 478
Cfr10I RCCGGY 1 cut(s) 126
ClaI ATCGAT 1 cut(s) 456
CviAII CATG 1 cut(s) 479
DdeI CTNAG 1 cut(s) 242
DpnI GATC 8 cut(s) 6, 41, 141, 222, 266, 336, 447, 698
DpnII GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
EaeI YGGCCR 1 cut(s) 46
EciI GGCGGA 1 cut(s) 50
Eco88I CYCGRG 1 cut(s) 388
EcoRII CCWGG 1 cut(s) 733
Esp3I CGTCTC 1 cut(s) 205
FaeI CATG 1 cut(s) 482
FaiI YATR 8 cut(s) 206, 283, 285, 306, 395, 480, 644, 677
FatI CATG 1 cut(s) 478
FauI CCCGC 1 cut(s) 150
FauNDI CATATG 1 cut(s) 283
FbaI TGATCA 2 cut(s) 264, 445
Fnu4HI GCNGC 2 cut(s) 131, 510
FokI GGATG 2 cut(s) 449, 690
Fsp4HI GCNGC 2 cut(s) 131, 510
GluI GCNGC 2 cut(s) 131, 510
HaeIII GGCC 1 cut(s) 48
HapII CCGG 1 cut(s) 127
Hin1I GRCGYC 1 cut(s) 60
Hin1II CATG 1 cut(s) 482
HincII GTYRAC 1 cut(s) 553
HindII GTYRAC 1 cut(s) 553
HinfI GANTC 4 cut(s) 110, 563, 672, 775
HpaI GTTAAC 1 cut(s) 553
HpaII CCGG 1 cut(s) 127
HphI GGTGA 1 cut(s) 613
Hpy166II GTNNAC 1 cut(s) 553
Hpy188I TCNGA 2 cut(s) 90, 708
Hpy188III TCNNGA 5 cut(s) 224, 317, 479, 583, 725
Hpy8I GTNNAC 1 cut(s) 553
Hpy99I CGWCG 2 cut(s) 47, 62
HpyAV CCTTC 3 cut(s) 85, 580, 598
HpyCH4III ACNGT 1 cut(s) 771
HpyCH4IV ACGT 1 cut(s) 60
HpyCH4V TGCA 4 cut(s) 17, 308, 347, 626
HpyF10VI GCNNNNNNNGC 2 cut(s) 127, 749
HpyF3I CTNAG 1 cut(s) 242
HpySE526I ACGT 1 cut(s) 60
Hsp92I GRCGYC 1 cut(s) 60
Hsp92II CATG 1 cut(s) 482
KroI GCCGGC 1 cut(s) 126
KroNI GCCGGC 1 cut(s) 128
Ksp22I TGATCA 2 cut(s) 264, 445
KspAI GTTAAC 1 cut(s) 553
Kzo9I GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
LmnI GCTCC 1 cut(s) 28
Lsp1109I GCAGC 2 cut(s) 142, 521
LweI GCATC 2 cut(s) 144, 334
MaeII ACGT 1 cut(s) 60
MalI GATC 8 cut(s) 6, 41, 141, 222, 266, 336, 447, 698
MboI GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
MboII GAAGA 4 cut(s) 55, 112, 149, 706
MflI RGATCY 3 cut(s) 4, 139, 334
MhlI GDGCHC 1 cut(s) 466
MluCI AATT 3 cut(s) 216, 609, 764
MlyI GAGTC 3 cut(s) 557, 681, 784
MmeI TCCRAC 1 cut(s) 475
MnlI CCTC 3 cut(s) 19, 397, 756
MroNI GCCGGC 1 cut(s) 126
MseI TTAA 2 cut(s) 105, 552
MslI CAYNNNNRTG 1 cut(s) 689
MspA1I CMGCKG 1 cut(s) 133
MspI CCGG 1 cut(s) 127
MspR9I CCNGG 1 cut(s) 735
Mva1269I GAATGC 1 cut(s) 243
MvaI CCWGG 1 cut(s) 735
MwoI GCNNNNNNNGC 2 cut(s) 127, 749
NaeI GCCGGC 1 cut(s) 128
NdeI CATATG 1 cut(s) 283
NdeII GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
NgoMIV GCCGGC 1 cut(s) 126
NlaIII CATG 1 cut(s) 482
NlaIV GGNNCC 1 cut(s) 6
NspV TTCGAA 1 cut(s) 113
PagI TCATGA 1 cut(s) 478
PctI GAATGC 1 cut(s) 243
PdiI GCCGGC 1 cut(s) 128
PfeI GAWTC 1 cut(s) 110
PflMI CCANNNNNTGG 1 cut(s) 433
PkrI GCNGC 2 cut(s) 132, 511
PleI GAGTC 3 cut(s) 557, 680, 783
PpsI GAGTC 3 cut(s) 557, 680, 783
Psp6I CCWGG 1 cut(s) 733
PspGI CCWGG 1 cut(s) 733
PspN4I GGNNCC 1 cut(s) 6
PsuI RGATCY 3 cut(s) 4, 139, 334
PvuII CAGCTG 1 cut(s) 133
RseI CAYNNNNRTG 1 cut(s) 689
SaqAI TTAA 2 cut(s) 105, 552
SatI GCNGC 2 cut(s) 131, 510
Sau3AI GATC 8 cut(s) 4, 39, 139, 220, 264, 334, 445, 696
SchI GAGTC 3 cut(s) 557, 681, 784
ScrFI CCNGG 1 cut(s) 735
SduI GDGCHC 1 cut(s) 466
SfaNI GCATC 2 cut(s) 144, 334
SfuI TTCGAA 1 cut(s) 113
SmiMI CAYNNNNRTG 1 cut(s) 689
SmlI CTYRAG 1 cut(s) 518
SmoI CTYRAG 1 cut(s) 518
Sse9I AATT 3 cut(s) 216, 609, 764
SsiI CCGC 2 cut(s) 35, 157
StyD4I CCNGG 1 cut(s) 733
TaaI ACNGT 1 cut(s) 771
TaiI ACGT 1 cut(s) 63
TaqI TCGA 4 cut(s) 42, 113, 456, 724
TasI AATT 3 cut(s) 216, 609, 764
TfiI GAWTC 1 cut(s) 110
Tru1I TTAA 2 cut(s) 105, 552
Tru9I TTAA 2 cut(s) 105, 552
TscAI CASTG 1 cut(s) 151
TseI GCWGC 2 cut(s) 130, 509
TspDTI ATGAA 3 cut(s) 467, 692, 770
TspGWI ACGGA 1 cut(s) 56
TspRI CASTG 1 cut(s) 151
Van91I CCANNNNNTGG 1 cut(s) 433
ZraI GACGTC 1 cut(s) 61
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.