Rroxscaffold_1G00036030

Histone deacetylase HDT1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002189
Physical Location & Seq
Reverse (-)
52632280 .. 52634468
2189 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00036030.1

Sequence Viewer

Length: 441 bp
ATGGAAGGGGGACTTTGTGGAGCTAATCCAGGGTCTCAGACTGGGTCTGTTAATAGTTGTCTTTTCTTCACTCCAGGTGTTGAAGTGAAGGCTGAAGAGCCCCTGAGTGTAGTGCCAAACCAAGGCAATGTGGTGCATTTGTCACAGGCTTGTCTAGGCGAGTCAAAGAAGGCAGCTGACATTATTATCTATAGAAAGACCGGAGAGCAGAAGCTTGTGTTGGGGCATCTCATTCCTGGCCAAAACCCACAGTTGTCATTTGACTTGGTCTTTGACGATGAGTTTGAACTATCCCACAACTGGAAAAGTGAGTTTGAATCAGAGTTAGAAGAAGAGGAGAAAGAACTCCCAATCATTGCTGCAGAGAATGATTTTGTGCCTGCTGACATTAGTTCTATAGGGTATCAAATATTTCTGGGGCTGTCACGCCCCGAATTTTGA
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
No domains found.

Protein Analysis

146

Amino Acids

15.95

Weight (kDa)

4.36

Isoelectric Point (pI)

43.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPL PF17800 26 - 102 1.2e-11 Nucleoplasmin-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcoI YGGCCR 1 cut(s) 238
AcsI RAATTY 1 cut(s) 434
AcuI CTGAAG 1 cut(s) 114
AfiI CCNNNNNNNGG 2 cut(s) 122, 300
AgsI TTSAA 3 cut(s) 83, 287, 317
AjnI CCWGG 3 cut(s) 28, 73, 235
AjuI GAANNNNNNNTTGG 2 cut(s) 203, 235
AluBI AGCT 3 cut(s) 23, 176, 214
AluI AGCT 3 cut(s) 23, 176, 214
Alw26I GTCTC 1 cut(s) 39
AoxI GGCC 1 cut(s) 238
ApeKI GCWGC 2 cut(s) 173, 359
ApoI RAATTY 1 cut(s) 434
ArsI GACNNNNNNTTYG 4 cut(s) 254, 266, 286, 298
BalI TGGCCA 1 cut(s) 240
BanII GRGCYC 1 cut(s) 102
BbvI GCAGC 2 cut(s) 185, 346
BciT130I CCWGG 3 cut(s) 30, 75, 237
BcoDI GTCTC 1 cut(s) 39
BfaI CTAG 1 cut(s) 155
BfmI CTRYAG 3 cut(s) 190, 360, 396
BisI GCNGC 2 cut(s) 174, 360
BlsI GCNGC 2 cut(s) 175, 361
Bme1390I CCNGG 3 cut(s) 30, 75, 237
BmrFI CCNGG 3 cut(s) 30, 75, 237
BmrI ACTGGG 1 cut(s) 51
BmsI GCATC 1 cut(s) 235
BmuI ACTGGG 1 cut(s) 51
BpmI CTGGAG 1 cut(s) 57
BsaI GGTCTC 1 cut(s) 39
BsaJI CCNNGG 2 cut(s) 29, 121
BsaWI WCCGGW 1 cut(s) 200
Bsc4I CCNNNNNNNGG 2 cut(s) 122, 300
Bse1I ACTGG 2 cut(s) 46, 305
Bse3DI GCAATG 2 cut(s) 133, 354
BseBI CCWGG 3 cut(s) 30, 75, 237
BseDI CCNNGG 2 cut(s) 29, 121
BseLI CCNNNNNNNGG 2 cut(s) 122, 300
BseMI GCAATG 2 cut(s) 133, 354
BseMII CTCAG 2 cut(s) 50, 95
BseNI ACTGG 2 cut(s) 46, 305
BseRI GAGGAG 1 cut(s) 350
BseXI GCAGC 2 cut(s) 185, 346
BshFI GGCC 1 cut(s) 240
BsiSI CCGG 1 cut(s) 201
BslFI GGGAC 1 cut(s) 24
BslI CCNNNNNNNGG 2 cut(s) 122, 300
BsmAI GTCTC 1 cut(s) 39
BsmFI GGGAC 1 cut(s) 24
BsnI GGCC 1 cut(s) 240
Bso31I GGTCTC 1 cut(s) 39
Bsp1286I GDGCHC 1 cut(s) 102
BspANI GGCC 1 cut(s) 240
BspCNI CTCAG 2 cut(s) 49, 96
BspMAI CTGCAG 1 cut(s) 364
BspQI GCTCTTC 1 cut(s) 90
BspTNI GGTCTC 1 cut(s) 39
BsrDI GCAATG 2 cut(s) 133, 354
BsrI ACTGG 2 cut(s) 46, 305
BssECI CCNNGG 2 cut(s) 29, 121
BssT1I CCWWGG 1 cut(s) 121
Bst2UI CCWGG 3 cut(s) 30, 75, 237
Bst4CI ACNGT 1 cut(s) 252
Bst6I CTCTTC 2 cut(s) 90, 327
BstC8I GCNNGC 1 cut(s) 381
BstDEI CTNAG 2 cut(s) 36, 104
BstMAI GTCTC 1 cut(s) 39
BstNI CCWGG 3 cut(s) 30, 75, 237
BstSCI CCNGG 3 cut(s) 28, 73, 235
BstSFI CTRYAG 3 cut(s) 190, 360, 396
BstV1I GCAGC 2 cut(s) 185, 346
BsuRI GGCC 1 cut(s) 240
Cac8I GCNNGC 1 cut(s) 381
CviJI RGCY 8 cut(s) 23, 92, 100, 149, 176, 214, 240, 421
CviKI_1 RGCY 8 cut(s) 23, 92, 100, 149, 176, 214, 240, 421
DdeI CTNAG 2 cut(s) 36, 104
EaeI YGGCCR 1 cut(s) 238
Eam1104I CTCTTC 2 cut(s) 90, 327
EarI CTCTTC 2 cut(s) 90, 327
Eco130I CCWWGG 1 cut(s) 121
Eco24I GRGCYC 1 cut(s) 102
Eco31I GGTCTC 1 cut(s) 39
Eco57I CTGAAG 1 cut(s) 114
EcoRII CCWGG 3 cut(s) 28, 73, 235
EcoT14I CCWWGG 1 cut(s) 121
EcoT38I GRGCYC 1 cut(s) 102
ErhI CCWWGG 1 cut(s) 121
FaiI YATR 2 cut(s) 192, 398
FalI AAGNNNNNCTT 1 cut(s) 29
FaqI GGGAC 1 cut(s) 24
Fnu4HI GCNGC 2 cut(s) 174, 360
FriOI GRGCYC 1 cut(s) 102
Fsp4HI GCNGC 2 cut(s) 174, 360
FspBI CTAG 1 cut(s) 155
GluI GCNGC 2 cut(s) 174, 360
GsuI CTGGAG 1 cut(s) 57
HaeIII GGCC 1 cut(s) 240
HapII CCGG 1 cut(s) 201
HindIII AAGCTT 1 cut(s) 212
HinfI GANTC 2 cut(s) 161, 317
HpaII CCGG 1 cut(s) 201
Hpy188I TCNGA 2 cut(s) 39, 322
HpyAV CCTTC 2 cut(s) 82, 163
HpyCH4III ACNGT 1 cut(s) 252
HpyCH4V TGCA 2 cut(s) 136, 362
HpyF3I CTNAG 2 cut(s) 36, 104
LguI GCTCTTC 1 cut(s) 90
LmnI GCTCC 1 cut(s) 20
Lsp1109I GCAGC 2 cut(s) 185, 346
LweI GCATC 1 cut(s) 235
MaeI CTAG 1 cut(s) 155
MaeIII GTNAC 2 cut(s) 141, 423
MboII GAAGA 4 cut(s) 58, 107, 341, 344
MhlI GDGCHC 1 cut(s) 102
MlsI TGGCCA 1 cut(s) 240
MluCI AATT 1 cut(s) 434
MluNI TGGCCA 1 cut(s) 240
MlyI GAGTC 1 cut(s) 170
MnlI CCTC 1 cut(s) 328
Mox20I TGGCCA 1 cut(s) 240
MscI TGGCCA 1 cut(s) 240
MseI TTAA 1 cut(s) 51
Msp20I TGGCCA 1 cut(s) 240
MspA1I CMGCKG 1 cut(s) 176
MspI CCGG 1 cut(s) 201
MspR9I CCNGG 3 cut(s) 30, 75, 237
MvaI CCWGG 3 cut(s) 30, 75, 237
NmuCI GTSAC 2 cut(s) 141, 423
PciSI GCTCTTC 1 cut(s) 90
PfeI GAWTC 1 cut(s) 317
PflFI GACNNNGTC 2 cut(s) 43, 266
PkrI GCNGC 2 cut(s) 175, 361
PleI GAGTC 1 cut(s) 169
PpsI GAGTC 1 cut(s) 169
Psp6I CCWGG 3 cut(s) 28, 73, 235
PspGI CCWGG 3 cut(s) 28, 73, 235
PstI CTGCAG 1 cut(s) 364
PsyI GACNNNGTC 2 cut(s) 43, 266
PvuII CAGCTG 1 cut(s) 176
SapI GCTCTTC 1 cut(s) 90
SaqAI TTAA 1 cut(s) 51
SatI GCNGC 2 cut(s) 174, 360
SchI GAGTC 1 cut(s) 170
ScrFI CCNGG 3 cut(s) 30, 75, 237
SduI GDGCHC 1 cut(s) 102
SetI ASST 4 cut(s) 25, 79, 178, 216
SfaNI GCATC 1 cut(s) 235
SfcI CTRYAG 3 cut(s) 190, 360, 396
Sse9I AATT 1 cut(s) 434
SspI AATATT 1 cut(s) 411
SspMI CTAG 1 cut(s) 155
StyD4I CCNGG 3 cut(s) 28, 73, 235
StyI CCWWGG 1 cut(s) 121
TaaI ACNGT 1 cut(s) 252
TasI AATT 1 cut(s) 434
TfiI GAWTC 1 cut(s) 317
Tru1I TTAA 1 cut(s) 51
Tru9I TTAA 1 cut(s) 51
TseFI GTSAC 2 cut(s) 141, 423
TseI GCWGC 2 cut(s) 173, 359
Tsp45I GTSAC 2 cut(s) 141, 423
Tth111I GACNNNGTC 2 cut(s) 43, 266
XapI RAATTY 1 cut(s) 434
XspI CTAG 1 cut(s) 155
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.