RLG00000006424

Histone deacetylase HDT1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0002189
Physical Location & Seq
Forward (+)
7013531 .. 7016104
2574 bp
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UTR
Exon/CDS
Intron
RLM00000006424

Sequence Viewer

Length: 504 bp
ATGGATGTAAGAGTCCTTAACTTCAGCATGAGCAAGCCTCGCGTTATGTTCAATAACAATGAATTTCAACCTCAGGATATTGAACCGCTGGAGAATTATCCTAAGGTTCTAATTTTCACAACGGGATCTGGAATCAGTCCGATCATGTCCCTGATTGAATCAGGACTGGGTGTTGAAGTGAAGGCTGGAGAGCCCCTGAGTGTAGTGCCAAACCAAAGCAATGTGGTGCATTTGTCACAGGCTTGTCTAGGTGAGTCAAAGAAGGCAGCTGACAACATTGTTATCTATGGAAAGACCGGAGAGCAGAAGCTTGTGTTGGGGCATCTCATTCCTGGCCAAATCCCACAGTTGTCATTTGATTTGGTCTTTGATGATGAGTTGGAACTATCCCACAACTGGAAAAGTGGTACTATCCACTTTGCTGCTTATCAATCTGTAATGGGAGATGAATATCCTTTCACTATATTTCTGCACTTTTCAGTAATTGATGGGTCTTTTTATTAA
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

168

Amino Acids

18.51

Weight (kDa)

4.84

Isoelectric Point (pI)

44.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPL PF17800 57 - 140 2.7e-13 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)
AccII CGCG 1 cut(s) 42
AciI CCGC 1 cut(s) 86
AclWI GGATC 1 cut(s) 133
AcoI YGGCCR 1 cut(s) 334
AcsI RAATTY 1 cut(s) 62
AcuI CTGAAG 1 cut(s) 7
AfaI GTAC 1 cut(s) 409
AfiI CCNNNNNNNGG 1 cut(s) 396
AgsI TTSAA 5 cut(s) 52, 68, 83, 158, 176
AjnI CCWGG 1 cut(s) 331
AjuI GAANNNNNNNTTGG 2 cut(s) 299, 331
AluBI AGCT 2 cut(s) 269, 310
AluI AGCT 2 cut(s) 269, 310
AlwI GGATC 1 cut(s) 133
AoxI GGCC 1 cut(s) 334
ApeKI GCWGC 2 cut(s) 266, 422
ApoI RAATTY 1 cut(s) 62
AsuHPI GGTGA 1 cut(s) 263
AxyI CCTNAGG 2 cut(s) 72, 102
BalI TGGCCA 1 cut(s) 336
BanII GRGCYC 1 cut(s) 195
BbvI GCAGC 2 cut(s) 278, 409
BccI CCATC 1 cut(s) 482
BciT130I CCWGG 1 cut(s) 333
BfaI CTAG 1 cut(s) 248
BisI GCNGC 2 cut(s) 267, 423
BlsI GCNGC 2 cut(s) 268, 424
Bme1390I CCNGG 1 cut(s) 333
BmrFI CCNGG 1 cut(s) 333
BmrI ACTGGG 1 cut(s) 176
BmsI GCATC 1 cut(s) 331
BmuI ACTGGG 1 cut(s) 176
BplI GAGNNNNNCTC 2 cut(s) 22, 54
BpmI CTGGAG 2 cut(s) 110, 207
BsaBI GATNNNNATC 1 cut(s) 450
BsaWI WCCGGW 1 cut(s) 296
Bsc4I CCNNNNNNNGG 1 cut(s) 396
Bse1I ACTGG 2 cut(s) 171, 401
Bse21I CCTNAGG 2 cut(s) 72, 102
Bse3DI GCAATG 1 cut(s) 226
Bse8I GATNNNNATC 1 cut(s) 450
BseBI CCWGG 1 cut(s) 333
BseGI GGATG 1 cut(s) 10
BseJI GATNNNNATC 1 cut(s) 450
BseLI CCNNNNNNNGG 1 cut(s) 396
BseMI GCAATG 1 cut(s) 226
BseMII CTCAG 2 cut(s) 86, 188
BseNI ACTGG 2 cut(s) 171, 401
BseXI GCAGC 2 cut(s) 278, 409
BsgI GTGCAG 1 cut(s) 455
Bsh1236I CGCG 1 cut(s) 42
BshFI GGCC 1 cut(s) 336
BsiSI CCGG 1 cut(s) 297
BslFI GGGAC 1 cut(s) 133
BslI CCNNNNNNNGG 1 cut(s) 396
BsmFI GGGAC 1 cut(s) 133
BsnI GGCC 1 cut(s) 336
Bsp1286I GDGCHC 1 cut(s) 195
Bsp143I GATC 2 cut(s) 125, 141
BspACI CCGC 1 cut(s) 86
BspANI GGCC 1 cut(s) 336
BspCNI CTCAG 2 cut(s) 85, 189
BspFNI CGCG 1 cut(s) 42
BspPI GGATC 1 cut(s) 133
BsrDI GCAATG 1 cut(s) 226
BsrI ACTGG 2 cut(s) 171, 401
BssMI GATC 2 cut(s) 125, 141
Bst2UI CCWGG 1 cut(s) 333
Bst4CI ACNGT 1 cut(s) 348
BstC8I GCNNGC 1 cut(s) 35
BstDEI CTNAG 3 cut(s) 72, 102, 197
BstF5I GGATG 1 cut(s) 10
BstFNI CGCG 1 cut(s) 42
BstKTI GATC 2 cut(s) 128, 144
BstMBI GATC 2 cut(s) 125, 141
BstMWI GCNNNNNNNGC 1 cut(s) 39
BstNI CCWGG 1 cut(s) 333
BstSCI CCNGG 1 cut(s) 331
BstUI CGCG 1 cut(s) 42
BstV1I GCAGC 2 cut(s) 278, 409
BstX2I RGATCY 1 cut(s) 125
BstYI RGATCY 1 cut(s) 125
Bsu36I CCTNAGG 2 cut(s) 72, 102
BsuRI GGCC 1 cut(s) 336
BtsCI GGATG 1 cut(s) 10
Cac8I GCNNGC 1 cut(s) 35
Csp6I GTAC 1 cut(s) 408
CviAII CATG 2 cut(s) 28, 145
CviJI RGCY 7 cut(s) 37, 185, 193, 242, 269, 310, 336
CviKI_1 RGCY 7 cut(s) 37, 185, 193, 242, 269, 310, 336
CviQI GTAC 1 cut(s) 408
DdeI CTNAG 3 cut(s) 72, 102, 197
DpnI GATC 2 cut(s) 127, 143
DpnII GATC 2 cut(s) 125, 141
EaeI YGGCCR 1 cut(s) 334
Eco24I GRGCYC 1 cut(s) 195
Eco57I CTGAAG 1 cut(s) 7
Eco81I CCTNAGG 2 cut(s) 72, 102
EcoRII CCWGG 1 cut(s) 331
EcoT38I GRGCYC 1 cut(s) 195
FaeI CATG 2 cut(s) 31, 148
FaiI YATR 5 cut(s) 29, 47, 146, 288, 464
FaqI GGGAC 1 cut(s) 133
FatI CATG 2 cut(s) 27, 144
Fnu4HI GCNGC 2 cut(s) 267, 423
FokI GGATG 1 cut(s) 17
FriOI GRGCYC 1 cut(s) 195
Fsp4HI GCNGC 2 cut(s) 267, 423
FspBI CTAG 1 cut(s) 248
GluI GCNGC 2 cut(s) 267, 423
GsuI CTGGAG 2 cut(s) 110, 207
HaeIII GGCC 1 cut(s) 336
HapII CCGG 1 cut(s) 297
Hin1II CATG 2 cut(s) 31, 148
HindIII AAGCTT 1 cut(s) 308
HinfI GANTC 4 cut(s) 12, 132, 158, 254
HpaII CCGG 1 cut(s) 297
HphI GGTGA 1 cut(s) 263
Hpy188I TCNGA 1 cut(s) 141
Hpy188III TCNNGA 3 cut(s) 74, 129, 162
HpyAV CCTTC 2 cut(s) 175, 256
HpyCH4III ACNGT 1 cut(s) 348
HpyCH4V TGCA 2 cut(s) 229, 472
HpyF10VI GCNNNNNNNGC 1 cut(s) 39
HpyF3I CTNAG 3 cut(s) 72, 102, 197
Hsp92II CATG 2 cut(s) 31, 148
Kzo9I GATC 2 cut(s) 125, 141
Lsp1109I GCAGC 2 cut(s) 278, 409
LweI GCATC 1 cut(s) 331
MaeI CTAG 1 cut(s) 248
MaeIII GTNAC 1 cut(s) 234
MalI GATC 2 cut(s) 127, 143
MboI GATC 2 cut(s) 125, 141
MflI RGATCY 1 cut(s) 125
MhlI GDGCHC 1 cut(s) 195
MlsI TGGCCA 1 cut(s) 336
MluCI AATT 4 cut(s) 62, 94, 111, 483
MluNI TGGCCA 1 cut(s) 336
MlyI GAGTC 2 cut(s) 21, 263
MmeI TCCRAC 1 cut(s) 360
MnlI CCTC 2 cut(s) 48, 81
Mox20I TGGCCA 1 cut(s) 336
MscI TGGCCA 1 cut(s) 336
MseI TTAA 2 cut(s) 18, 502
Msp20I TGGCCA 1 cut(s) 336
MspA1I CMGCKG 2 cut(s) 88, 269
MspI CCGG 1 cut(s) 297
MspR9I CCNGG 1 cut(s) 333
MvaI CCWGG 1 cut(s) 333
MvnI CGCG 1 cut(s) 42
MwoI GCNNNNNNNGC 1 cut(s) 39
NdeII GATC 2 cut(s) 125, 141
NlaIII CATG 2 cut(s) 31, 148
NmuCI GTSAC 1 cut(s) 234
PfeI GAWTC 2 cut(s) 132, 158
PkrI GCNGC 2 cut(s) 268, 424
PleI GAGTC 2 cut(s) 20, 262
PpsI GAGTC 2 cut(s) 20, 262
Psp6I CCWGG 1 cut(s) 331
PspGI CCWGG 1 cut(s) 331
PsuI RGATCY 1 cut(s) 125
PvuII CAGCTG 1 cut(s) 269
RsaI GTAC 1 cut(s) 409
RsaNI GTAC 1 cut(s) 408
SaqAI TTAA 2 cut(s) 18, 502
SatI GCNGC 2 cut(s) 267, 423
Sau3AI GATC 2 cut(s) 125, 141
SchI GAGTC 2 cut(s) 21, 263
ScrFI CCNGG 1 cut(s) 333
SduI GDGCHC 1 cut(s) 195
SetI ASST 5 cut(s) 73, 108, 253, 271, 312
SfaNI GCATC 1 cut(s) 331
Sse9I AATT 4 cut(s) 62, 94, 111, 483
SsiI CCGC 1 cut(s) 86
SspMI CTAG 1 cut(s) 248
StyD4I CCNGG 1 cut(s) 331
TaaI ACNGT 1 cut(s) 348
TasI AATT 4 cut(s) 62, 94, 111, 483
TfiI GAWTC 2 cut(s) 132, 158
Tru1I TTAA 2 cut(s) 18, 502
Tru9I TTAA 2 cut(s) 18, 502
TseFI GTSAC 1 cut(s) 234
TseI GCWGC 2 cut(s) 266, 422
Tsp45I GTSAC 1 cut(s) 234
TspDTI ATGAA 2 cut(s) 75, 462
XapI RAATTY 1 cut(s) 62
XspI CTAG 1 cut(s) 248
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.