Rroxscaffold_3G00258660

Sin3 binding region of histone deacetylase complex subunit SAP30

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0010563
Physical Location & Seq
Reverse (-)
53107224 .. 53111032
3809 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00258660.1

Sequence Viewer

Length: 708 bp
ATGCTAGAGCCTGAGCTGTGTGCTTCTAGGGTGCTGTCACCTTCTCATGAGGAAAGTGGGGATGATGAGCTTTCAGTTCTTCCCAGGCACACTAAGGTAATTGTTACTGGGAACAACAGAACAAAGTCAGTGTTGGTGGGTCTACAGGGAGTGGTCAAGAAAGCTGTTGGGCTTGGTGGTTGGCACTGGCTGGTTCTGAAAAATGGCGTTGAAGTCAAGCTGCAAAGGAATGCATTGAGTGTGCTGGAACATCCTACAGGGAATGAGGAAGATTTCGACAATGATTATGATAACTCTAGCAGTAGCTCTGAACTGGGTGTGAAGGAGAATGATTTCACTAGGAGTCTTGAGTTCCACAGACATGTTAAACCAAGATTTAGGTATCCAAAATCATATGTTCCATCCACAGCAACCAAGTCGATTTATCGTGGCAGTTATCAAGAATTTCAGTCCATCCACAAACCTCAGCTGAGAGTAAACATGGCAAAACTAGGAACAAGCACTTTGCGGAGGTACTGCAGGCACTTCAACCTTGTAAGCAGCTATCCTAATCCAACGAGGGAGCAACTGATTAACGTTGTGCAACGACATTTTACATCACAGCTGATGCGATTGGATGAGGTATCAGTGATCACTGAATTTGTCAATGCTGCAAGGAGGCGCAAATCTGGCGAGTTGGCTAGGAAACGTACAGAACGAGAAATGTGA
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

235

Amino Acids

26.92

Weight (kDa)

9.63

Isoelectric Point (pI)

47.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SAP30_Sin3_bdg PF13867 164 - 219 1e-18 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)
AccI GTMKAC 1 cut(s) 142
AciI CCGC 1 cut(s) 508
AclI AACGTT 1 cut(s) 576
AcsI RAATTY 2 cut(s) 443, 638
AfaI GTAC 2 cut(s) 515, 691
AflIII ACRYGT 1 cut(s) 361
AgsI TTSAA 2 cut(s) 212, 529
AjnI CCWGG 1 cut(s) 83
AluBI AGCT 8 cut(s) 16, 70, 164, 220, 306, 469, 543, 604
AluI AGCT 8 cut(s) 16, 70, 164, 220, 306, 469, 543, 604
ApeKI GCWGC 3 cut(s) 220, 540, 650
ApoI RAATTY 2 cut(s) 443, 638
Asp700I GAANNNNTTC 1 cut(s) 332
AspLEI GCGC 1 cut(s) 663
AsuHPI GGTGA 1 cut(s) 30
BbvCI CCTCAGC 1 cut(s) 465
BbvI GCAGC 3 cut(s) 207, 552, 637
BccI CCATC 2 cut(s) 409, 461
BcgI CGANNNNNNTGC 2 cut(s) 399, 433
BciT130I CCWGG 1 cut(s) 85
BciVI GTATCC 1 cut(s) 393
BclI TGATCA 1 cut(s) 630
BfaI CTAG 6 cut(s) 5, 27, 297, 339, 491, 681
BfmI CTRYAG 3 cut(s) 143, 255, 517
BfuI GTATCC 1 cut(s) 393
BisI GCNGC 3 cut(s) 221, 541, 651
BlsI GCNGC 3 cut(s) 222, 542, 652
Bme1390I CCNGG 1 cut(s) 85
BmrFI CCNGG 1 cut(s) 85
BmrI ACTGGG 2 cut(s) 117, 323
BmsI GCATC 1 cut(s) 597
BmuI ACTGGG 2 cut(s) 117, 323
Bpu10I CCTNAGC 2 cut(s) 12, 465
BpuEI CTTGAG 1 cut(s) 368
BsaJI CCNNGG 1 cut(s) 83
Bse1I ACTGG 3 cut(s) 112, 191, 318
BseBI CCWGG 1 cut(s) 85
BseDI CCNNGG 1 cut(s) 83
BseGI GGATG 5 cut(s) 67, 250, 401, 453, 622
BseMII CTCAG 2 cut(s) 461, 479
BseNI ACTGG 3 cut(s) 112, 191, 318
BseXI GCAGC 3 cut(s) 207, 552, 637
BsmI GAATGC 1 cut(s) 235
Bsp143I GATC 1 cut(s) 630
BspACI CCGC 1 cut(s) 508
BspCNI CTCAG 3 cut(s) 4, 462, 478
BspHI TCATGA 1 cut(s) 46
BspMAI CTGCAG 1 cut(s) 521
BsrI ACTGG 3 cut(s) 112, 191, 318
BssECI CCNNGG 1 cut(s) 83
BssMI GATC 1 cut(s) 630
Bst2UI CCWGG 1 cut(s) 85
BstC8I GCNNGC 1 cut(s) 521
BstDEI CTNAG 4 cut(s) 12, 93, 465, 470
BstF5I GGATG 5 cut(s) 67, 250, 401, 453, 622
BstHHI GCGC 1 cut(s) 663
BstKTI GATC 1 cut(s) 633
BstMBI GATC 1 cut(s) 630
BstMWI GCNNNNNNNGC 1 cut(s) 669
BstNI CCWGG 1 cut(s) 85
BstNSI RCATGY 1 cut(s) 365
BstSCI CCNGG 1 cut(s) 83
BstSFI CTRYAG 3 cut(s) 143, 255, 517
BstV1I GCAGC 3 cut(s) 207, 552, 637
BsuI GTATCC 1 cut(s) 393
BtsCI GGATG 5 cut(s) 67, 250, 401, 453, 622
BtsIMutI CAGTG 4 cut(s) 135, 184, 633, 633
Cac8I GCNNGC 1 cut(s) 521
CciI TCATGA 1 cut(s) 46
CfoI GCGC 1 cut(s) 663
Csp6I GTAC 2 cut(s) 514, 690
CviAII CATG 3 cut(s) 47, 362, 481
CviQI GTAC 2 cut(s) 514, 690
DdeI CTNAG 4 cut(s) 12, 93, 465, 470
DpnI GATC 1 cut(s) 632
DpnII GATC 1 cut(s) 630
EcoRII CCWGG 1 cut(s) 83
EcoT22I ATGCAT 1 cut(s) 235
FaeI CATG 3 cut(s) 50, 365, 484
FaiI YATR 6 cut(s) 48, 288, 363, 394, 396, 482
FatI CATG 3 cut(s) 46, 361, 480
FauNDI CATATG 1 cut(s) 394
FbaI TGATCA 1 cut(s) 630
FblI GTMKAC 1 cut(s) 142
Fnu4HI GCNGC 3 cut(s) 221, 541, 651
FokI GGATG 5 cut(s) 74, 237, 388, 440, 629
Fsp4HI GCNGC 3 cut(s) 221, 541, 651
FspBI CTAG 6 cut(s) 5, 27, 297, 339, 491, 681
GlaI GCGC 1 cut(s) 662
GluI GCNGC 3 cut(s) 221, 541, 651
HhaI GCGC 1 cut(s) 663
Hin1II CATG 3 cut(s) 50, 365, 484
Hin6I GCGC 1 cut(s) 661
HinP1I GCGC 1 cut(s) 661
HinfI GANTC 1 cut(s) 343
HphI GGTGA 1 cut(s) 30
Hpy166II GTNNAC 2 cut(s) 143, 478
Hpy188I TCNGA 2 cut(s) 198, 310
Hpy188III TCNNGA 4 cut(s) 47, 157, 347, 440
Hpy8I GTNNAC 2 cut(s) 143, 478
HpyAV CCTTC 2 cut(s) 51, 316
HpyCH4IV ACGT 2 cut(s) 576, 688
HpyCH4V TGCA 5 cut(s) 223, 233, 519, 583, 653
HpyF10VI GCNNNNNNNGC 1 cut(s) 669
HpyF3I CTNAG 4 cut(s) 12, 93, 465, 470
HpySE526I ACGT 2 cut(s) 576, 688
Hsp92II CATG 3 cut(s) 50, 365, 484
HspAI GCGC 1 cut(s) 661
Ksp22I TGATCA 1 cut(s) 630
Kzo9I GATC 1 cut(s) 630
LmnI GCTCC 1 cut(s) 562
Lsp1109I GCAGC 3 cut(s) 207, 552, 637
LweI GCATC 1 cut(s) 597
MaeI CTAG 6 cut(s) 5, 27, 297, 339, 491, 681
MaeII ACGT 2 cut(s) 576, 688
MaeIII GTNAC 2 cut(s) 36, 103
MalI GATC 1 cut(s) 632
MboI GATC 1 cut(s) 630
MboII GAAGA 2 cut(s) 71, 281
MluCI AATT 3 cut(s) 99, 443, 638
MlyI GAGTC 1 cut(s) 352
MmeI TCCRAC 1 cut(s) 578
MnlI CCTC 7 cut(s) 43, 259, 474, 504, 552, 613, 651
Mph1103I ATGCAT 1 cut(s) 235
MroXI GAANNNNTTC 1 cut(s) 332
MseI TTAA 2 cut(s) 366, 573
MslI CAYNNNNRTG 1 cut(s) 360
MspA1I CMGCKG 2 cut(s) 469, 604
MspR9I CCNGG 1 cut(s) 85
Mva1269I GAATGC 1 cut(s) 235
MvaI CCWGG 1 cut(s) 85
MwoI GCNNNNNNNGC 1 cut(s) 669
NdeI CATATG 1 cut(s) 394
NdeII GATC 1 cut(s) 630
NlaIII CATG 3 cut(s) 50, 365, 484
NmuCI GTSAC 1 cut(s) 36
NsiI ATGCAT 1 cut(s) 235
NspI RCATGY 1 cut(s) 365
PagI TCATGA 1 cut(s) 46
PciI ACATGT 1 cut(s) 361
PcsI WCGNNNNNNNCGW 1 cut(s) 694
PctI GAATGC 1 cut(s) 235
PdmI GAANNNNTTC 1 cut(s) 332
PkrI GCNGC 3 cut(s) 222, 542, 652
PleI GAGTC 1 cut(s) 351
PpsI GAGTC 1 cut(s) 351
PscI ACATGT 1 cut(s) 361
Psp1406I AACGTT 1 cut(s) 576
Psp6I CCWGG 1 cut(s) 83
PspGI CCWGG 1 cut(s) 83
PstI CTGCAG 1 cut(s) 521
PvuII CAGCTG 2 cut(s) 469, 604
RsaI GTAC 2 cut(s) 515, 691
RsaNI GTAC 2 cut(s) 514, 690
RseI CAYNNNNRTG 1 cut(s) 360
SaqAI TTAA 2 cut(s) 366, 573
SatI GCNGC 3 cut(s) 221, 541, 651
Sau3AI GATC 1 cut(s) 630
SchI GAGTC 1 cut(s) 352
ScrFI CCNGG 1 cut(s) 85
SfaNI GCATC 1 cut(s) 597
SfcI CTRYAG 3 cut(s) 143, 255, 517
SmiMI CAYNNNNRTG 1 cut(s) 360
SmlI CTYRAG 1 cut(s) 347
SmoI CTYRAG 1 cut(s) 347
Sse9I AATT 3 cut(s) 99, 443, 638
SsiI CCGC 1 cut(s) 508
SspMI CTAG 6 cut(s) 5, 27, 297, 339, 491, 681
StyD4I CCNGG 1 cut(s) 83
TaiI ACGT 2 cut(s) 579, 691
TaqI TCGA 2 cut(s) 276, 419
TasI AATT 3 cut(s) 99, 443, 638
Tru1I TTAA 2 cut(s) 366, 573
Tru9I TTAA 2 cut(s) 366, 573
TscAI CASTG 4 cut(s) 135, 191, 633, 640
TseFI GTSAC 1 cut(s) 36
TseI GCWGC 3 cut(s) 220, 540, 650
Tsp45I GTSAC 1 cut(s) 36
TspRI CASTG 4 cut(s) 135, 191, 633, 640
XapI RAATTY 2 cut(s) 443, 638
XceI RCATGY 1 cut(s) 365
XmiI GTMKAC 1 cut(s) 142
XmnI GAANNNNTTC 1 cut(s) 332
XspI CTAG 6 cut(s) 5, 27, 297, 339, 491, 681
Zsp2I ATGCAT 1 cut(s) 235
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.