RchiOBHm_Chr5g0055321

Histone deacetylase HDT1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0002189
Physical Location & Seq
Forward (+)
58287895 .. 58289570
1676 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ33234

Sequence Viewer

Length: 348 bp
ATGGAGTTCTGGGGTGTTGAAGTGAAGGCTGGAGAGCCCCTGAGTGTGGTGCCAGACCAAGGCAATGTGGTGCATTTGTCACAGGCTTGTCTAGGCGAGTCAAAGAAGGCAGCTGACAGCGTTGTTATCTATGGAAAGACTGCAGAGAAGAAGCTTGTGTTGGGACATCTCATTCCTGGCCAAATCCCTCAGTTGTCATTTGATTTGGTCTTTGATGACGAGTTTGAGCTATCCCACAACTGGAAAAGTGGTAGTGTCCATTTTGCTGGTTATCAATCCGTAATGGGAGATGAATATCCTTCCACTATATTTCTGTACTTTTCAGTAATTGATGGGTCTTTTTATTAA
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

115

Amino Acids

12.68

Weight (kDa)

4.7

Isoelectric Point (pI)

29.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPL PF17800 3 - 91 5.5e-19 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)
AccB1I GGYRCC 1 cut(s) 49
AcoI YGGCCR 1 cut(s) 178
AfaI GTAC 1 cut(s) 317
AfiI CCNNNNNNNGG 3 cut(s) 46, 59, 240
AgsI TTSAA 1 cut(s) 20
AjnI CCWGG 1 cut(s) 175
AjuI GAANNNNNNNTTGG 2 cut(s) 143, 175
AluBI AGCT 3 cut(s) 113, 154, 229
AluI AGCT 3 cut(s) 113, 154, 229
AoxI GGCC 1 cut(s) 178
ApeKI GCWGC 1 cut(s) 110
BalI TGGCCA 1 cut(s) 180
BanI GGYRCC 1 cut(s) 49
BanII GRGCYC 1 cut(s) 39
BbvI GCAGC 1 cut(s) 122
BccI CCATC 1 cut(s) 326
BciT130I CCWGG 1 cut(s) 177
BfaI CTAG 1 cut(s) 92
BfmI CTRYAG 1 cut(s) 141
BisI GCNGC 1 cut(s) 111
BlsI GCNGC 1 cut(s) 112
Bme1390I CCNGG 1 cut(s) 177
BmiI GGNNCC 1 cut(s) 51
BmrFI CCNGG 1 cut(s) 177
BpmI CTGGAG 1 cut(s) 51
BsaBI GATNNNNATC 1 cut(s) 294
BsaJI CCNNGG 1 cut(s) 58
Bsc4I CCNNNNNNNGG 3 cut(s) 46, 59, 240
Bse1I ACTGG 1 cut(s) 245
Bse3DI GCAATG 1 cut(s) 70
Bse8I GATNNNNATC 1 cut(s) 294
BseBI CCWGG 1 cut(s) 177
BseDI CCNNGG 1 cut(s) 58
BseJI GATNNNNATC 1 cut(s) 294
BseLI CCNNNNNNNGG 3 cut(s) 46, 59, 240
BseMI GCAATG 1 cut(s) 70
BseMII CTCAG 2 cut(s) 32, 203
BseNI ACTGG 1 cut(s) 245
BseXI GCAGC 1 cut(s) 122
BshFI GGCC 1 cut(s) 180
BshNI GGYRCC 1 cut(s) 49
BslFI GGGAC 1 cut(s) 177
BslI CCNNNNNNNGG 3 cut(s) 46, 59, 240
BsmFI GGGAC 1 cut(s) 177
BsnI GGCC 1 cut(s) 180
Bsp1286I GDGCHC 1 cut(s) 39
BspANI GGCC 1 cut(s) 180
BspCNI CTCAG 2 cut(s) 33, 202
BspLI GGNNCC 1 cut(s) 51
BspMAI CTGCAG 1 cut(s) 145
BspT107I GGYRCC 1 cut(s) 49
BsrDI GCAATG 1 cut(s) 70
BsrI ACTGG 1 cut(s) 245
BssECI CCNNGG 1 cut(s) 58
BssT1I CCWWGG 1 cut(s) 58
Bst2UI CCWGG 1 cut(s) 177
BstDEI CTNAG 2 cut(s) 41, 189
BstNI CCWGG 1 cut(s) 177
BstSCI CCNGG 1 cut(s) 175
BstSFI CTRYAG 1 cut(s) 141
BstV1I GCAGC 1 cut(s) 122
BstXI CCANNNNNNTGG 1 cut(s) 266
BsuRI GGCC 1 cut(s) 180
Csp6I GTAC 1 cut(s) 316
CviJI RGCY 7 cut(s) 29, 37, 86, 113, 154, 180, 229
CviKI_1 RGCY 7 cut(s) 29, 37, 86, 113, 154, 180, 229
CviQI GTAC 1 cut(s) 316
DdeI CTNAG 2 cut(s) 41, 189
EaeI YGGCCR 1 cut(s) 178
Eco130I CCWWGG 1 cut(s) 58
Eco24I GRGCYC 1 cut(s) 39
EcoRII CCWGG 1 cut(s) 175
EcoT14I CCWWGG 1 cut(s) 58
EcoT38I GRGCYC 1 cut(s) 39
ErhI CCWWGG 1 cut(s) 58
FaiI YATR 2 cut(s) 132, 308
FaqI GGGAC 1 cut(s) 177
Fnu4HI GCNGC 1 cut(s) 111
FriOI GRGCYC 1 cut(s) 39
Fsp4HI GCNGC 1 cut(s) 111
FspBI CTAG 1 cut(s) 92
GluI GCNGC 1 cut(s) 111
GsuI CTGGAG 1 cut(s) 51
HaeIII GGCC 1 cut(s) 180
HindIII AAGCTT 1 cut(s) 152
HinfI GANTC 1 cut(s) 98
HpyAV CCTTC 3 cut(s) 19, 100, 309
HpyCH4V TGCA 2 cut(s) 73, 143
HpyF3I CTNAG 2 cut(s) 41, 189
LpnPI CCDG 8 cut(s) 15, 53, 66, 68, 162, 189, 226, 252
Lsp1109I GCAGC 1 cut(s) 122
MaeI CTAG 1 cut(s) 92
MaeIII GTNAC 1 cut(s) 78
MboII GAAGA 1 cut(s) 160
MhlI GDGCHC 1 cut(s) 39
MlsI TGGCCA 1 cut(s) 180
MluCI AATT 1 cut(s) 327
MluNI TGGCCA 1 cut(s) 180
MlyI GAGTC 1 cut(s) 107
MnlI CCTC 1 cut(s) 198
Mox20I TGGCCA 1 cut(s) 180
MscI TGGCCA 1 cut(s) 180
MseI TTAA 1 cut(s) 346
Msp20I TGGCCA 1 cut(s) 180
MspA1I CMGCKG 1 cut(s) 113
MspR9I CCNGG 1 cut(s) 177
MvaI CCWGG 1 cut(s) 177
NlaIV GGNNCC 1 cut(s) 51
NmuCI GTSAC 1 cut(s) 78
PkrI GCNGC 1 cut(s) 112
PleI GAGTC 1 cut(s) 106
PpsI GAGTC 1 cut(s) 106
Psp6I CCWGG 1 cut(s) 175
PspGI CCWGG 1 cut(s) 175
PspN4I GGNNCC 1 cut(s) 51
PstI CTGCAG 1 cut(s) 145
PvuII CAGCTG 1 cut(s) 113
RsaI GTAC 1 cut(s) 317
RsaNI GTAC 1 cut(s) 316
SaqAI TTAA 1 cut(s) 346
SatI GCNGC 1 cut(s) 111
SchI GAGTC 1 cut(s) 107
ScrFI CCNGG 1 cut(s) 177
SduI GDGCHC 1 cut(s) 39
SetI ASST 3 cut(s) 115, 156, 231
SfcI CTRYAG 1 cut(s) 141
Sse9I AATT 1 cut(s) 327
SspMI CTAG 1 cut(s) 92
StyD4I CCNGG 1 cut(s) 175
StyI CCWWGG 1 cut(s) 58
TasI AATT 1 cut(s) 327
TatI WGTACW 1 cut(s) 315
Tru1I TTAA 1 cut(s) 346
Tru9I TTAA 1 cut(s) 346
TseFI GTSAC 1 cut(s) 78
TseI GCWGC 1 cut(s) 110
Tsp45I GTSAC 1 cut(s) 78
TspDTI ATGAA 1 cut(s) 306
TspGWI ACGGA 1 cut(s) 268
XspI CTAG 1 cut(s) 92
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.