FvH4_6g03930

SEC-C motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0011179
Physical Location & Seq
Reverse (-)
2120579 .. 2123513
2935 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g03930.t1

Sequence Viewer

Length: 687 bp
ATGCATTCTTCAAGAATCCTAAGCACAACACTTTACAGGAGAACCTCCAACTTCCTCTCCTCACTATCTGGCTATTCTCACAGTGACAGTCACCACACTCCATCACTGCACCGCTCGATCTTCTCCACGTCGCAGCTGGACAACTCATGGGTGAACAAGATCAAGGGCGTCTTCACCGGCAACAAGACCTCCTCAGATGAACCCAAGCTCAGCAGCTCCGACTCATTCACTTTGCTCAGATTTGCGGATGAGATGAAGACTGCTAGGAGAGTCGGTGCATTCAAGCAATACATTGTTGGCAGAAGCAGTGAAGTGACTTTTGCGGATGCATTTGAGAAGCAGGAGTCGATAATACGGTATCTTGGAGGATTCGATTCTACTGGAGAGAATCTCCAAGTTTCTCAAAAACAAGAAGCAGCAAAGCATTGTAAATGCACAATATCTGATGTTGAGAATGCACTTGCAAAGTTCACCTGGGCCAGAGAAGCACACTTCAAGATGGAAAAGTTGAAAGCAGAAGGGAAACCAATTCCAACAAACATCGCCGAGGTGCAAAAGTTGATGGGTTCAACCCCATTTGACGTTGCTCAGTCTAATTTGGCTAAGAGTGGGCAAATTAGTAGGAATGCGCTTTGTCCGTGTGGTTCCAAGAAGAGATACAAGCGGTGCTGTGGAAAGGATAAGTGA
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
SEC-C

Protein Analysis

229

Amino Acids

25.41

Weight (kDa)

9.56

Isoelectric Point (pI)

43.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SEC-C PF02810 208 - 226 1.2e-06 SEC-C motif
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: OG0011179)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04950
fragaria_vesca FvH4_6g03930
malus_domestica MD12G1234200.v1.1
prunus_persica Prupe.6G337300_v2.0.a1
pyrus_communis pycom04g19330 pycom12g21660
rosa_chinensis RchiOBHm_Chr3g0452481 RchiOBHm_Chr3g0452521
rosa_laevigata RLG00000025595 RLG00000025598
rosa_multiflora Rmu_co8297771.1_g000001 Rmu_sc0011680.1_g000004
rosa_roxburghii Rroxscaffold_6G00429510
rosa_rugosa Rorug02G0641200
rosa_samantha Rh3AG043000 Rh3BG044700 Rh3CG043300 Rh3DG044100
rosa_wichuraiana Rw3G003330 Rw3G003360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 114
AciI CCGC 4 cut(s) 112, 245, 323, 664
AcyI GRCGYC 1 cut(s) 168
AgsI TTSAA 5 cut(s) 12, 283, 496, 511, 570
AjiI CACGTC 1 cut(s) 129
AjnI CCWGG 1 cut(s) 473
AluBI AGCT 3 cut(s) 136, 208, 216
AluI AGCT 3 cut(s) 136, 208, 216
AoxI GGCC 1 cut(s) 477
ApeKI GCWGC 3 cut(s) 133, 213, 416
AspLEI GCGC 1 cut(s) 631
AspS9I GGNCC 1 cut(s) 477
AsuHPI GGTGA 4 cut(s) 83, 163, 166, 463
BbsI GAAGAC 2 cut(s) 163, 263
BbvI GCAGC 3 cut(s) 145, 225, 428
BccI CCATC 3 cut(s) 109, 493, 556
BciT130I CCWGG 1 cut(s) 475
BfaI CTAG 1 cut(s) 264
BisI GCNGC 3 cut(s) 134, 214, 417
BlpI GCTNAGC 1 cut(s) 209
BlsI GCNGC 3 cut(s) 135, 215, 418
Bme1390I CCNGG 1 cut(s) 475
BmgBI CACGTC 1 cut(s) 129
BmgT120I GGNCC 1 cut(s) 477
BmiI GGNNCC 1 cut(s) 646
BmrFI CCNGG 1 cut(s) 475
BmsI GCATC 1 cut(s) 316
BpiI GAAGAC 2 cut(s) 163, 263
BplI GAGNNNNNCTC 2 cut(s) 375, 407
BpmI CTGGAG 1 cut(s) 402
Bpu10I CCTNAGC 1 cut(s) 20
Bpu1102I GCTNAGC 1 cut(s) 209
BsaHI GRCGYC 1 cut(s) 168
BsaJI CCNNGG 2 cut(s) 474, 546
BsaXI ACNNNNNCTCC 6 cut(s) 41, 71, 173, 203, 259, 289
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 1 cut(s) 385
BseBI CCWGG 1 cut(s) 475
BseDI CCNNGG 2 cut(s) 474, 546
BseGI GGATG 2 cut(s) 253, 331
BseMII CTCAG 4 cut(s) 207, 223, 250, 602
BseNI ACTGG 1 cut(s) 385
BseRI GAGGAG 2 cut(s) 49, 181
BseXI GCAGC 3 cut(s) 145, 225, 428
BsgI GTGCAG 1 cut(s) 92
BshFI GGCC 1 cut(s) 479
BsiSI CCGG 1 cut(s) 177
BsmI GAATGC 4 cut(s) 4, 278, 460, 631
BsnI GGCC 1 cut(s) 479
Bsp143I GATC 2 cut(s) 117, 159
Bsp1720I GCTNAGC 1 cut(s) 209
BspACI CCGC 4 cut(s) 112, 245, 323, 664
BspANI GGCC 1 cut(s) 479
BspCNI CTCAG 4 cut(s) 206, 222, 249, 601
BspLI GGNNCC 1 cut(s) 646
BsrBI CCGCTC 1 cut(s) 114
BsrFI RCCGGY 1 cut(s) 176
BsrI ACTGG 1 cut(s) 385
BssAI RCCGGY 1 cut(s) 176
BssECI CCNNGG 2 cut(s) 474, 546
BssMI GATC 2 cut(s) 117, 159
BssNI GRCGYC 1 cut(s) 168
Bst2UI CCWGG 1 cut(s) 475
Bst4CI ACNGT 3 cut(s) 83, 89, 357
Bst6I CTCTTC 1 cut(s) 647
BstACI GRCGYC 1 cut(s) 168
BstDEI CTNAG 6 cut(s) 20, 193, 209, 236, 588, 603
BstF5I GGATG 2 cut(s) 253, 331
BstHHI GCGC 1 cut(s) 631
BstKTI GATC 2 cut(s) 120, 162
BstMBI GATC 2 cut(s) 117, 159
BstMWI GCNNNNNNNGC 1 cut(s) 485
BstNI CCWGG 1 cut(s) 475
BstSCI CCNGG 1 cut(s) 473
BstV1I GCAGC 3 cut(s) 145, 225, 428
BstV2I GAAGAC 2 cut(s) 163, 263
BsuRI GGCC 1 cut(s) 479
BtgZI GCGATG 1 cut(s) 526
BtrI CACGTC 1 cut(s) 129
BtsCI GGATG 2 cut(s) 253, 331
BtsI GCAGTG 2 cut(s) 104, 313
BtsIMutI CAGTG 3 cut(s) 88, 104, 313
CfoI GCGC 1 cut(s) 631
Cfr10I RCCGGY 1 cut(s) 176
Cfr13I GGNCC 1 cut(s) 477
CseI GACGC 1 cut(s) 157
CviAII CATG 1 cut(s) 147
CviJI RGCY 6 cut(s) 72, 136, 208, 216, 479, 602
CviKI_1 RGCY 6 cut(s) 72, 136, 208, 216, 479, 602
DdeI CTNAG 6 cut(s) 20, 193, 209, 236, 588, 603
DpnI GATC 2 cut(s) 119, 161
DpnII GATC 2 cut(s) 117, 159
Eam1104I CTCTTC 1 cut(s) 647
EarI CTCTTC 1 cut(s) 647
EcoRII CCWGG 1 cut(s) 473
EcoT22I ATGCAT 2 cut(s) 6, 331
FaeI CATG 1 cut(s) 150
FaiI YATR 1 cut(s) 148
FalI AAGNNNNNCTT 2 cut(s) 155, 187
FatI CATG 1 cut(s) 146
Fnu4HI GCNGC 3 cut(s) 134, 214, 417
FokI GGATG 2 cut(s) 260, 338
Fsp4HI GCNGC 3 cut(s) 134, 214, 417
FspBI CTAG 1 cut(s) 264
GlaI GCGC 1 cut(s) 630
GluI GCNGC 3 cut(s) 134, 214, 417
GsuI CTGGAG 1 cut(s) 402
HaeIII GGCC 1 cut(s) 479
HapII CCGG 1 cut(s) 177
HgaI GACGC 1 cut(s) 157
HhaI GCGC 1 cut(s) 631
Hin1I GRCGYC 1 cut(s) 168
Hin1II CATG 1 cut(s) 150
Hin6I GCGC 1 cut(s) 629
HinP1I GCGC 1 cut(s) 629
HinfI GANTC 7 cut(s) 15, 221, 270, 344, 369, 374, 388
HpaII CCGG 1 cut(s) 177
HphI GGTGA 4 cut(s) 83, 163, 166, 463
Hpy166II GTNNAC 2 cut(s) 154, 471
Hpy188I TCNGA 4 cut(s) 196, 220, 239, 445
Hpy188III TCNNGA 2 cut(s) 12, 496
Hpy8I GTNNAC 2 cut(s) 154, 471
Hpy99I CGWCG 1 cut(s) 133
HpyAV CCTTC 1 cut(s) 512
HpyCH4III ACNGT 3 cut(s) 83, 89, 357
HpyCH4IV ACGT 2 cut(s) 128, 582
HpyCH4V TGCA 8 cut(s) 4, 109, 278, 329, 435, 458, 464, 553
HpyF10VI GCNNNNNNNGC 1 cut(s) 485
HpyF3I CTNAG 6 cut(s) 20, 193, 209, 236, 588, 603
HpySE526I ACGT 2 cut(s) 128, 582
Hsp92I GRCGYC 1 cut(s) 168
Hsp92II CATG 1 cut(s) 150
HspAI GCGC 1 cut(s) 629
Kzo9I GATC 2 cut(s) 117, 159
LmnI GCTCC 1 cut(s) 221
LpnPI CCDG 9 cut(s) 22, 54, 122, 190, 326, 366, 460, 487, 493
Lsp1109I GCAGC 3 cut(s) 145, 225, 428
LweI GCATC 1 cut(s) 316
MaeI CTAG 1 cut(s) 264
MaeII ACGT 2 cut(s) 128, 582
MaeIII GTNAC 3 cut(s) 83, 89, 313
MalI GATC 2 cut(s) 119, 161
MbiI CCGCTC 1 cut(s) 114
MboI GATC 2 cut(s) 117, 159
MboII GAAGA 4 cut(s) 112, 163, 268, 664
MluCI AATT 3 cut(s) 528, 595, 615
MlyI GAGTC 3 cut(s) 215, 279, 353
MmeI TCCRAC 3 cut(s) 72, 243, 557
MnlI CCTC 7 cut(s) 55, 65, 70, 199, 202, 359, 541
Mph1103I ATGCAT 2 cut(s) 6, 331
MspA1I CMGCKG 1 cut(s) 136
MspI CCGG 1 cut(s) 177
MspR9I CCNGG 1 cut(s) 475
Mva1269I GAATGC 4 cut(s) 4, 278, 460, 631
MvaI CCWGG 1 cut(s) 475
MwoI GCNNNNNNNGC 1 cut(s) 485
NdeII GATC 2 cut(s) 117, 159
NlaIII CATG 1 cut(s) 150
NlaIV GGNNCC 1 cut(s) 646
NmeAIII GCCGAG 1 cut(s) 571
NmuCI GTSAC 3 cut(s) 83, 89, 313
NsiI ATGCAT 2 cut(s) 6, 331
PctI GAATGC 4 cut(s) 4, 278, 460, 631
PfeI GAWTC 4 cut(s) 15, 369, 374, 388
PkrI GCNGC 3 cut(s) 135, 215, 418
PleI GAGTC 3 cut(s) 215, 278, 352
PpsI GAGTC 3 cut(s) 215, 278, 352
Psp6I CCWGG 1 cut(s) 473
PspGI CCWGG 1 cut(s) 473
PspN4I GGNNCC 1 cut(s) 646
PspPI GGNCC 1 cut(s) 477
PvuII CAGCTG 1 cut(s) 136
SatI GCNGC 3 cut(s) 134, 214, 417
Sau3AI GATC 2 cut(s) 117, 159
Sau96I GGNCC 1 cut(s) 477
SchI GAGTC 3 cut(s) 215, 279, 353
ScrFI CCNGG 1 cut(s) 475
SetI ASST 9 cut(s) 47, 131, 138, 191, 210, 218, 476, 552, 585
SfaNI GCATC 1 cut(s) 316
Sse9I AATT 3 cut(s) 528, 595, 615
SsiI CCGC 4 cut(s) 112, 245, 323, 664
SspMI CTAG 1 cut(s) 264
StyD4I CCNGG 1 cut(s) 473
TaaI ACNGT 3 cut(s) 83, 89, 357
TaiI ACGT 2 cut(s) 131, 585
TaqI TCGA 3 cut(s) 116, 347, 372
TasI AATT 3 cut(s) 528, 595, 615
TfiI GAWTC 4 cut(s) 15, 369, 374, 388
TscAI CASTG 3 cut(s) 88, 111, 313
TseFI GTSAC 3 cut(s) 83, 89, 313
TseI GCWGC 3 cut(s) 133, 213, 416
Tsp45I GTSAC 3 cut(s) 83, 89, 313
TspDTI ATGAA 2 cut(s) 213, 269
TspGWI ACGGA 1 cut(s) 627
TspRI CASTG 3 cut(s) 88, 111, 313
XcmI CCANNNNNNNNNTGG 1 cut(s) 133
XspI CTAG 1 cut(s) 264
Zsp2I ATGCAT 2 cut(s) 6, 331
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.