FvH4_2g40250

Sin3 binding region of histone deacetylase complex subunit SAP30

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0008660
Physical Location & Seq
Forward (+)
28709866 .. 28713188
3323 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g40250.t2

Sequence Viewer

Length: 684 bp
ATGCTTCAGGCAATGGAGAGCTCCTTCAACAATGGCGGTGGCTTCTCACAGTTTCAGAGCTGCGGCGACAGCAGCGAGGAGGAGCTCTCGGTGCTGCCACGTCACACCAAGGTGGTGGTTACAGGCAATAACAGAACCAAGTCCGTTCTCGTCGGCCTCCAAGGCGTCGTCAAGAAGGCCGTCGGGTTAGGCGGATGGCATTGGCTGGTCCTTACAAATGGCATAGAAGTGAAGCTTCAGAGGAATGCCCTTAGTGTCATTGAAGCTCCTACTGGTAACGAGGAAGATGATGACCTTGATTTCGAGACTGTCCAGTGGAATGGATCAGACATGGCATCTGATGATACTCAAAAATCTCAAAGATCAAGACATAGAGTACATAAATCATGTGGATCATCTCACAAGACTATTTGCAGATCTTTCTCTAATGACTCACAATCTAAGGGTTCTGTTTCTACTCCTCGAGGGTCAAGTTCAACAAAAATTGATCTTGGGAAACTGGAGATGGCTGCTCTATGGAGATATTGGCGACACTTCAATCTTGTTGATGACATACCAAACCCGTCAAAAGAGCAGCTAATAGATGTTGTTCAGAGGCATTTTATGTCACAGCAAATCGACGAGTTGCAGGTGATTGTGGGGTTTGTTAAGGCTGCAAAGAAAATGAAGAATATGTGCAAATGA
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
SAP30_Sin3_bdg

Protein Analysis

228

Amino Acids

25.23

Weight (kDa)

8.33

Isoelectric Point (pI)

52.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SAP30_Sin3_bdg PF13867 167 - 205 1.8e-12 Sin3 binding region of histone deacetylase complex subunit SAP30
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 619
AbsI CCTCGAGG 1 cut(s) 462
Acc36I ACCTGC 1 cut(s) 619
AciI CCGC 3 cut(s) 36, 63, 192
AclWI GGATC 2 cut(s) 331, 400
AcuI CTGAAG 1 cut(s) 221
AcyI GRCGYC 1 cut(s) 165
AfaI GTAC 1 cut(s) 378
AgsI TTSAA 4 cut(s) 28, 263, 477, 538
AjiI CACGTC 1 cut(s) 101
AleI CACNNNNGTG 1 cut(s) 110
AluBI AGCT 6 cut(s) 21, 60, 85, 235, 266, 577
AluI AGCT 6 cut(s) 21, 60, 85, 235, 266, 577
Alw21I GWGCWC 2 cut(s) 23, 87
Alw26I GTCTC 1 cut(s) 299
AlwI GGATC 2 cut(s) 331, 400
Ama87I CYCGRG 1 cut(s) 462
AoxI GGCC 2 cut(s) 154, 177
ApeKI GCWGC 6 cut(s) 60, 72, 94, 509, 574, 653
ArsI GACNNNNNNTTYG 2 cut(s) 284, 316
AspS9I GGNCC 1 cut(s) 208
AsuHPI GGTGA 1 cut(s) 643
AvaI CYCGRG 1 cut(s) 462
AvaII GGWCC 1 cut(s) 208
BanII GRGCYC 2 cut(s) 23, 87
Bbv12I GWGCWC 2 cut(s) 23, 87
BbvI GCAGC 6 cut(s) 47, 81, 84, 496, 586, 640
BccI CCATC 2 cut(s) 189, 499
BceAI ACGGC 1 cut(s) 164
BcoDI GTCTC 1 cut(s) 299
BfuAI ACCTGC 1 cut(s) 619
BglI GCCNNNNNGGC 1 cut(s) 162
BglII AGATCT 1 cut(s) 416
BisI GCNGC 7 cut(s) 61, 64, 73, 95, 510, 575, 654
BlsI GCNGC 7 cut(s) 62, 65, 74, 96, 511, 576, 655
Bme18I GGWCC 1 cut(s) 208
BmeT110I CYCGRG 1 cut(s) 462
BmgBI CACGTC 1 cut(s) 101
BmgT120I GGNCC 1 cut(s) 208
BmsI GCATC 1 cut(s) 344
BplI GAGNNNNNCTC 2 cut(s) 71, 103
BpmI CTGGAG 1 cut(s) 521
BsaHI GRCGYC 1 cut(s) 165
BsaJI CCNNGG 2 cut(s) 108, 160
Bse1I ACTGG 3 cut(s) 277, 313, 504
Bse3DI GCAATG 1 cut(s) 18
BseDI CCNNGG 2 cut(s) 108, 160
BseGI GGATG 1 cut(s) 200
BseMI GCAATG 1 cut(s) 18
BseNI ACTGG 3 cut(s) 277, 313, 504
BseRI GAGGAG 3 cut(s) 92, 95, 450
BseXI GCAGC 6 cut(s) 47, 81, 84, 496, 586, 640
BshFI GGCC 2 cut(s) 156, 179
BsiHKAI GWGCWC 2 cut(s) 23, 87
BsiHKCI CYCGRG 1 cut(s) 462
BsmAI GTCTC 1 cut(s) 299
BsmI GAATGC 1 cut(s) 250
BsnI GGCC 2 cut(s) 156, 179
BsoBI CYCGRG 1 cut(s) 462
Bsp1286I GDGCHC 2 cut(s) 23, 87
Bsp143I GATC 5 cut(s) 323, 362, 392, 416, 487
BspACI CCGC 3 cut(s) 36, 63, 192
BspANI GGCC 2 cut(s) 156, 179
BspMI ACCTGC 1 cut(s) 619
BspPI GGATC 2 cut(s) 331, 400
BsrDI GCAATG 1 cut(s) 18
BsrI ACTGG 3 cut(s) 277, 313, 504
BssECI CCNNGG 2 cut(s) 108, 160
BssMI GATC 5 cut(s) 323, 362, 392, 416, 487
BssNI GRCGYC 1 cut(s) 165
BssT1I CCWWGG 2 cut(s) 108, 160
Bst4CI ACNGT 2 cut(s) 51, 310
BstACI GRCGYC 1 cut(s) 165
BstDEI CTNAG 2 cut(s) 251, 441
BstF5I GGATG 1 cut(s) 200
BstKTI GATC 5 cut(s) 326, 365, 395, 419, 490
BstMAI GTCTC 1 cut(s) 299
BstMBI GATC 5 cut(s) 323, 362, 392, 416, 487
BstMWI GCNNNNNNNGC 4 cut(s) 69, 72, 91, 162
BstV1I GCAGC 6 cut(s) 47, 81, 84, 496, 586, 640
BstX2I RGATCY 1 cut(s) 416
BstXI CCANNNNNNTGG 2 cut(s) 115, 320
BstYI RGATCY 1 cut(s) 416
BsuRI GGCC 2 cut(s) 156, 179
BtrI CACGTC 1 cut(s) 101
BtsCI GGATG 1 cut(s) 200
BtsIMutI CAGTG 1 cut(s) 320
BveI ACCTGC 1 cut(s) 619
Cfr13I GGNCC 1 cut(s) 208
CseI GACGC 1 cut(s) 154
Csp6I GTAC 1 cut(s) 377
CspCI CAANNNNNGTGG 2 cut(s) 19, 54
CviAII CATG 2 cut(s) 331, 387
CviQI GTAC 1 cut(s) 377
DdeI CTNAG 2 cut(s) 251, 441
DpnI GATC 5 cut(s) 325, 364, 394, 418, 489
DpnII GATC 5 cut(s) 323, 362, 392, 416, 487
EciI GGCGGA 1 cut(s) 207
Ecl136II GAGCTC 2 cut(s) 21, 85
Eco130I CCWWGG 2 cut(s) 108, 160
Eco24I GRGCYC 2 cut(s) 23, 87
Eco47I GGWCC 1 cut(s) 208
Eco53kI GAGCTC 2 cut(s) 21, 85
Eco57I CTGAAG 1 cut(s) 221
Eco88I CYCGRG 1 cut(s) 462
EcoICRI GAGCTC 2 cut(s) 21, 85
EcoT14I CCWWGG 2 cut(s) 108, 160
EcoT38I GRGCYC 2 cut(s) 23, 87
ErhI CCWWGG 2 cut(s) 108, 160
FaeI CATG 2 cut(s) 334, 390
FaiI YATR 9 cut(s) 224, 332, 372, 381, 388, 517, 554, 605, 674
FalI AAGNNNNNCTT 2 cut(s) 219, 251
FatI CATG 2 cut(s) 330, 386
Fnu4HI GCNGC 7 cut(s) 61, 64, 73, 95, 510, 575, 654
FokI GGATG 1 cut(s) 207
FriOI GRGCYC 2 cut(s) 23, 87
Fsp4HI GCNGC 7 cut(s) 61, 64, 73, 95, 510, 575, 654
GluI GCNGC 7 cut(s) 61, 64, 73, 95, 510, 575, 654
GsuI CTGGAG 1 cut(s) 521
HaeIII GGCC 2 cut(s) 156, 179
HgaI GACGC 1 cut(s) 154
Hin1I GRCGYC 1 cut(s) 165
Hin1II CATG 2 cut(s) 334, 390
HindIII AAGCTT 1 cut(s) 233
HinfI GANTC 1 cut(s) 431
HphI GGTGA 1 cut(s) 643
Hpy188I TCNGA 5 cut(s) 57, 240, 328, 340, 594
Hpy188III TCNNGA 3 cut(s) 172, 304, 366
Hpy99I CGWCG 4 cut(s) 155, 170, 185, 623
HpyAV CCTTC 2 cut(s) 34, 169
HpyCH4III ACNGT 2 cut(s) 51, 310
HpyCH4IV ACGT 1 cut(s) 100
HpyCH4V TGCA 4 cut(s) 414, 628, 656, 678
HpyF10VI GCNNNNNNNGC 4 cut(s) 69, 72, 91, 162
HpyF3I CTNAG 2 cut(s) 251, 441
HpySE526I ACGT 1 cut(s) 100
Hsp92I GRCGYC 1 cut(s) 165
Hsp92II CATG 2 cut(s) 334, 390
Kzo9I GATC 5 cut(s) 323, 362, 392, 416, 487
LmnI GCTCC 3 cut(s) 26, 82, 271
LpnPI CCDG 6 cut(s) 108, 191, 258, 326, 485, 614
Lsp1109I GCAGC 6 cut(s) 47, 81, 84, 496, 586, 640
LweI GCATC 1 cut(s) 344
MaeII ACGT 1 cut(s) 100
MaeIII GTNAC 4 cut(s) 101, 118, 275, 606
MalI GATC 5 cut(s) 325, 364, 394, 418, 489
MboI GATC 5 cut(s) 323, 362, 392, 416, 487
MboII GAAGA 2 cut(s) 296, 679
MflI RGATCY 1 cut(s) 416
MhlI GDGCHC 2 cut(s) 23, 87
MluCI AATT 1 cut(s) 483
MlyI GAGTC 1 cut(s) 425
MnlI CCTC 8 cut(s) 70, 73, 167, 234, 274, 458, 471, 588
MseI TTAA 1 cut(s) 648
MslI CAYNNNNRTG 2 cut(s) 110, 227
Mva1269I GAATGC 1 cut(s) 250
MwoI GCNNNNNNNGC 4 cut(s) 69, 72, 91, 162
NdeII GATC 5 cut(s) 323, 362, 392, 416, 487
NlaIII CATG 2 cut(s) 334, 390
NmuCI GTSAC 2 cut(s) 101, 606
OliI CACNNNNGTG 1 cut(s) 110
PaeR7I CTCGAG 1 cut(s) 462
PaqCI CACCTGC 1 cut(s) 619
PctI GAATGC 1 cut(s) 250
PkrI GCNGC 7 cut(s) 62, 65, 74, 96, 511, 576, 655
PleI GAGTC 1 cut(s) 425
PpsI GAGTC 1 cut(s) 425
Psp124BI GAGCTC 2 cut(s) 23, 87
PspPI GGNCC 1 cut(s) 208
PspXI VCTCGAGB 1 cut(s) 462
PsuI RGATCY 1 cut(s) 416
RsaI GTAC 1 cut(s) 378
RsaNI GTAC 1 cut(s) 377
RseI CAYNNNNRTG 2 cut(s) 110, 227
SacI GAGCTC 2 cut(s) 23, 87
SaqAI TTAA 1 cut(s) 648
SatI GCNGC 7 cut(s) 61, 64, 73, 95, 510, 575, 654
Sau3AI GATC 5 cut(s) 323, 362, 392, 416, 487
Sau96I GGNCC 1 cut(s) 208
SchI GAGTC 1 cut(s) 425
SduI GDGCHC 2 cut(s) 23, 87
SfaNI GCATC 1 cut(s) 344
Sfr274I CTCGAG 1 cut(s) 462
SinI GGWCC 1 cut(s) 208
SlaI CTCGAG 1 cut(s) 462
SmiMI CAYNNNNRTG 2 cut(s) 110, 227
SmlI CTYRAG 1 cut(s) 462
SmoI CTYRAG 1 cut(s) 462
Sse9I AATT 1 cut(s) 483
SsiI CCGC 3 cut(s) 36, 63, 192
SstI GAGCTC 2 cut(s) 23, 87
StyI CCWWGG 2 cut(s) 108, 160
TaaI ACNGT 2 cut(s) 51, 310
TaiI ACGT 1 cut(s) 103
TaqI TCGA 3 cut(s) 303, 463, 618
TasI AATT 1 cut(s) 483
TatI WGTACW 1 cut(s) 376
TauI GCSGC 1 cut(s) 66
Tru1I TTAA 1 cut(s) 648
Tru9I TTAA 1 cut(s) 648
TscAI CASTG 1 cut(s) 320
TseFI GTSAC 2 cut(s) 101, 606
TseI GCWGC 6 cut(s) 60, 72, 94, 509, 574, 653
Tsp45I GTSAC 2 cut(s) 101, 606
TspDTI ATGAA 1 cut(s) 680
TspGWI ACGGA 1 cut(s) 133
TspRI CASTG 1 cut(s) 320
VpaK11BI GGWCC 1 cut(s) 208
XhoI CTCGAG 1 cut(s) 462
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.