Rw3G023590

Belongs to the histone deacetylase family. HD Type 1 subfamily

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0009070
Physical Location & Seq
Forward (+)
29589103 .. 29592025
2923 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G023590.1

Sequence Viewer

Length: 1017 bp
ATGAAACCCCACCACATTCATGAGATGGTCCACAACCTCATCATCAACTACGGCCTTCACCGTAAAATGGACATCAACTGCCCTTTCCCGGCTACCACCGACGACCTACGCCAATTCCACTCTGATGACTACGTCAACTTCCTCGCCTCCGTCTCCCCCAACACCCTTAATGATACTCCCTTTTCTCGCCACAAGGAGCGCTTCAACCACATTCTGTCCTTGTATTTTCACAAGCTCAATCTCGGACATGCTGATATTGCCATCAATTGGGCCGGTGGGCTTCACCATGCAAAGATGGCCGCAGCCTCGATGTTCTGTTATGTCAACGACATTGTACTAGGAATTCTTGAGATCCTCAAGGTTCATAGGTTGTCTTTCCATAGATTTGGTGATTTCTTTCCGGGGACTGGGCAAGTTGAAGACATTGGATCAGTGGGACTTGGGGAGAATTATTCTTTGAATGTACCCCTGAACGATGGAATAGATGATGAGGATTTTCGTTGGTTATTTCGTCCCGTAATAGTGATGGAGATGTATCAACCGGAGGCTGTTGTTCTTCAGTTTGGGGCGGATTCGCTAACCGGGGACAGGTTAGGGTGCTTCAACTTGTCTATCAAAGGCCATGCGGATTGTCTTCGTTTCCTGCTTAGATCGTTTAATGTCCCTTTGATGGTCTTCGGCGGGGGAGGTTATACGATTCGGAATGTTGTTCGTTGCTGGTGTTATGAGACGGCAGTAGCAATCGGAGCGGAACTTGATGGTCAGTTGCCTGACAACGACTACTATGATTATTTTGGTCCAAATTACACTCTTCATATTGACACATGTGACATGAAGAACCTGAACAAACCTGCAAAGTTGGTGGAGATGAGGAATAAGCTGCTAGACCAGATTTGCAGATTACCTCATGCACCCAGCGTTCCATTTCTGACAACACCATCAATTACACAAGTTCCGGAGGAGAAGACTGATGAAGCCAAACCGGCCCCGACTCTAAATAAAGTAATAGTTGACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003824 GO:0004407 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006325 GO:0006464 GO:0006476 GO:0006807 GO:0006950 GO:0006970 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0009507 GO:0009526 GO:0009536 GO:0009553 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009790 GO:0009791 GO:0009793 GO:0009845 GO:0009892 GO:0009941 GO:0009987 GO:0010033 GO:0010154 GO:0010228 GO:0010431 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0016043 GO:0016441 GO:0016458 GO:0016569 GO:0016570 GO:0016575 GO:0016787 GO:0016810 GO:0016811 GO:0019213 GO:0019222 GO:0019538 GO:0021700 GO:0022414 GO:0031967 GO:0031975 GO:0032501 GO:0032502 GO:0032504 GO:0033558 GO:0033993 GO:0035601 GO:0036211 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0048229 GO:0048316 GO:0048519 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0050789 GO:0050896 GO:0051276 GO:0060255 GO:0061458 GO:0065007 GO:0071695 GO:0071704 GO:0071840 GO:0090351 GO:0097305 GO:0098732 GO:0140096 GO:1901564 GO:1901700
KEGG Pathways
Metabolic & Signaling
ko04110 ko04213 ko04330 ko04919 ko05016 ko05034 ko05165 ko05169 ko05200 ko05202 ko05203 ko05220 map04110 map04213 map04330 map04919 map05016 map05034 map05165 map05169 map05200 map05202 map05203 map05220
Pfam Domains
Protein Families
Hist_deacetyl

Protein Analysis

338

Amino Acids

38.25

Weight (kDa)

5.82

Isoelectric Point (pI)

41.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Hist_deacetyl PF00850 2 - 120 2.6e-11 Histone deacetylase domain
Hist_deacetyl PF00850 120 - 245 6e-29 Histone deacetylase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 859
AccB7I CCANNNNNTGG 1 cut(s) 267
AccBSI CCGCTC 1 cut(s) 749
AccIII TCCGGA 1 cut(s) 955
AciI CCGC 5 cut(s) 300, 569, 626, 681, 749
AclWI GGATC 2 cut(s) 346, 436
AcoI YGGCCR 1 cut(s) 297
AcsI RAATTY 1 cut(s) 342
AcuI CTGAAG 1 cut(s) 542
AfaI GTAC 2 cut(s) 336, 465
AfeI AGCGCT 1 cut(s) 200
AfiI CCNNNNNNNGG 6 cut(s) 67, 88, 267, 407, 588, 670
AflIII ACRYGT 1 cut(s) 824
AgsI TTSAA 4 cut(s) 205, 419, 460, 604
AluBI AGCT 2 cut(s) 235, 880
AluI AGCT 2 cut(s) 235, 880
Alw26I GTCTC 2 cut(s) 157, 722
AlwI GGATC 2 cut(s) 346, 436
Aor13HI TCCGGA 1 cut(s) 955
Aor51HI AGCGCT 1 cut(s) 200
AoxI GGCC 5 cut(s) 52, 270, 297, 619, 984
ApeKI GCWGC 2 cut(s) 302, 880
ApoI RAATTY 1 cut(s) 342
AspLEI GCGC 1 cut(s) 201
AspS9I GGNCC 4 cut(s) 28, 270, 797, 985
AsuC2I CCSGG 3 cut(s) 89, 402, 583
AsuHPI GGTGA 3 cut(s) 50, 275, 401
AvaII GGWCC 2 cut(s) 28, 797
BbsI GAAGAC 4 cut(s) 426, 626, 667, 971
BbvI GCAGC 2 cut(s) 314, 867
BccI CCATC 8 cut(s) 19, 269, 289, 470, 520, 664, 752, 946
BceAI ACGGC 2 cut(s) 67, 747
BcnI CCSGG 3 cut(s) 89, 402, 583
BcoDI GTCTC 2 cut(s) 157, 722
BfaI CTAG 2 cut(s) 338, 884
BfoI RGCGCY 1 cut(s) 202
BfuAI ACCTGC 1 cut(s) 859
BglI GCCNNNNNGGC 1 cut(s) 983
BisI GCNGC 3 cut(s) 300, 303, 881
BlsI GCNGC 3 cut(s) 301, 304, 882
Bme1390I CCNGG 3 cut(s) 89, 402, 583
Bme18I GGWCC 2 cut(s) 28, 797
BmgT120I GGNCC 4 cut(s) 28, 270, 797, 985
BmiI GGNNCC 1 cut(s) 987
BmrFI CCNGG 3 cut(s) 89, 402, 583
BmrI ACTGGG 1 cut(s) 417
BmuI ACTGGG 1 cut(s) 417
BpiI GAAGAC 4 cut(s) 426, 626, 667, 971
BpuEI CTTGAG 2 cut(s) 341, 368
BpuMI CCSGG 3 cut(s) 89, 402, 583
BsaJI CCNNGG 2 cut(s) 401, 582
BsaWI WCCGGW 2 cut(s) 541, 955
Bsc4I CCNNNNNNNGG 6 cut(s) 67, 88, 267, 407, 588, 670
Bse118I RCCGGY 2 cut(s) 272, 982
Bse1I ACTGG 1 cut(s) 412
BseAI TCCGGA 1 cut(s) 955
BseDI CCNNGG 2 cut(s) 401, 582
BseLI CCNNNNNNNGG 6 cut(s) 67, 88, 267, 407, 588, 670
BseNI ACTGG 1 cut(s) 412
BseRI GAGGAG 1 cut(s) 974
BseXI GCAGC 2 cut(s) 314, 867
BseYI CCCAGC 1 cut(s) 914
BshFI GGCC 5 cut(s) 54, 272, 299, 621, 986
BsiSI CCGG 7 cut(s) 89, 273, 401, 542, 582, 956, 983
BslFI GGGAC 5 cut(s) 418, 450, 498, 599, 647
BslI CCNNNNNNNGG 6 cut(s) 67, 88, 267, 407, 588, 670
BsmAI GTCTC 2 cut(s) 157, 722
BsmBI CGTCTC 2 cut(s) 157, 722
BsmFI GGGAC 5 cut(s) 418, 450, 498, 599, 647
BsnI GGCC 5 cut(s) 54, 272, 299, 621, 986
Bsp13I TCCGGA 1 cut(s) 955
Bsp143I GATC 3 cut(s) 351, 428, 650
BspACI CCGC 5 cut(s) 300, 569, 626, 681, 749
BspANI GGCC 5 cut(s) 54, 272, 299, 621, 986
BspEI TCCGGA 1 cut(s) 955
BspHI TCATGA 1 cut(s) 19
BspLI GGNNCC 1 cut(s) 987
BspMI ACCTGC 1 cut(s) 859
BspPI GGATC 2 cut(s) 346, 436
BsrBI CCGCTC 1 cut(s) 749
BsrFI RCCGGY 2 cut(s) 272, 982
BsrI ACTGG 1 cut(s) 412
BssAI RCCGGY 2 cut(s) 272, 982
BssECI CCNNGG 2 cut(s) 401, 582
BssMI GATC 3 cut(s) 351, 428, 650
Bst4CI ACNGT 1 cut(s) 62
Bst6I CTCTTC 1 cut(s) 816
BstDEI CTNAG 1 cut(s) 647
BstH2I RGCGCY 1 cut(s) 202
BstHHI GCGC 1 cut(s) 201
BstKTI GATC 3 cut(s) 354, 431, 653
BstMAI GTCTC 2 cut(s) 157, 722
BstMBI GATC 3 cut(s) 351, 428, 650
BstMWI GCNNNNNNNGC 4 cut(s) 257, 296, 746, 983
BstNSI RCATGY 2 cut(s) 251, 828
BstSCI CCNGG 3 cut(s) 87, 400, 581
BstV1I GCAGC 2 cut(s) 314, 867
BstV2I GAAGAC 4 cut(s) 426, 626, 667, 971
BstX2I RGATCY 1 cut(s) 351
BstXI CCANNNNNNTGG 1 cut(s) 386
BstYI RGATCY 1 cut(s) 351
BsuRI GGCC 5 cut(s) 54, 272, 299, 621, 986
BtsIMutI CAGTG 1 cut(s) 438
BveI ACCTGC 1 cut(s) 859
CciI TCATGA 1 cut(s) 19
CfoI GCGC 1 cut(s) 201
Cfr10I RCCGGY 2 cut(s) 272, 982
Cfr13I GGNCC 4 cut(s) 28, 270, 797, 985
Csp6I GTAC 2 cut(s) 335, 464
CspCI CAANNNNNGTGG 2 cut(s) 843, 878
CviAII CATG 7 cut(s) 20, 248, 287, 623, 825, 832, 908
CviQI GTAC 2 cut(s) 335, 464
DdeI CTNAG 1 cut(s) 647
DpnI GATC 3 cut(s) 353, 430, 652
DpnII GATC 3 cut(s) 351, 428, 650
EaeI YGGCCR 1 cut(s) 297
Eam1104I CTCTTC 1 cut(s) 816
EarI CTCTTC 1 cut(s) 816
EciI GGCGGA 1 cut(s) 584
Eco47I GGWCC 2 cut(s) 28, 797
Eco47III AGCGCT 1 cut(s) 200
Eco57I CTGAAG 1 cut(s) 542
EcoRI GAATTC 1 cut(s) 342
Esp3I CGTCTC 2 cut(s) 157, 722
FaeI CATG 7 cut(s) 23, 251, 290, 626, 828, 835, 911
FalI AAGNNNNNCTT 2 cut(s) 185, 217
FaqI GGGAC 5 cut(s) 418, 450, 498, 599, 647
FatI CATG 7 cut(s) 19, 247, 286, 622, 824, 831, 907
FauI CCCGC 1 cut(s) 674
Fnu4HI GCNGC 3 cut(s) 300, 303, 881
Fsp4HI GCNGC 3 cut(s) 300, 303, 881
FspBI CTAG 2 cut(s) 338, 884
GlaI GCGC 1 cut(s) 200
GluI GCNGC 3 cut(s) 300, 303, 881
GsaI CCCAGC 1 cut(s) 918
HaeII RGCGCY 1 cut(s) 202
HaeIII GGCC 5 cut(s) 54, 272, 299, 621, 986
HapII CCGG 7 cut(s) 89, 273, 401, 542, 582, 956, 983
HhaI GCGC 1 cut(s) 201
Hin1II CATG 7 cut(s) 23, 251, 290, 626, 828, 835, 911
Hin6I GCGC 1 cut(s) 199
HinP1I GCGC 1 cut(s) 199
HincII GTYRAC 3 cut(s) 136, 325, 1012
HindII GTYRAC 3 cut(s) 136, 325, 1012
HinfI GANTC 3 cut(s) 572, 697, 991
HpaII CCGG 7 cut(s) 89, 273, 401, 542, 582, 956, 983
HphI GGTGA 3 cut(s) 50, 275, 401
Hpy166II GTNNAC 4 cut(s) 31, 136, 325, 1012
Hpy188I TCNGA 5 cut(s) 124, 245, 702, 746, 930
Hpy188III TCNNGA 3 cut(s) 20, 347, 956
Hpy8I GTNNAC 4 cut(s) 31, 136, 325, 1012
Hpy99I CGWCG 1 cut(s) 104
HpyAV CCTTC 1 cut(s) 65
HpyCH4III ACNGT 1 cut(s) 62
HpyCH4IV ACGT 1 cut(s) 132
HpyCH4V TGCA 4 cut(s) 290, 854, 897, 911
HpyF10VI GCNNNNNNNGC 4 cut(s) 257, 296, 746, 983
HpyF3I CTNAG 1 cut(s) 647
HpySE526I ACGT 1 cut(s) 132
Hsp92II CATG 7 cut(s) 23, 251, 290, 626, 828, 835, 911
HspAI GCGC 1 cut(s) 199
Kpn2I TCCGGA 1 cut(s) 955
Kzo9I GATC 3 cut(s) 351, 428, 650
LmnI GCTCC 2 cut(s) 196, 746
Lsp1109I GCAGC 2 cut(s) 314, 867
MaeI CTAG 2 cut(s) 338, 884
MaeII ACGT 1 cut(s) 132
MaeIII GTNAC 1 cut(s) 827
MalI GATC 3 cut(s) 353, 430, 652
MbiI CCGCTC 1 cut(s) 749
MboI GATC 3 cut(s) 351, 428, 650
MboII GAAGA 7 cut(s) 431, 548, 626, 667, 803, 847, 976
MfeI CAATTG 1 cut(s) 265
MflI RGATCY 1 cut(s) 351
MluCI AATT 6 cut(s) 113, 265, 342, 448, 802, 942
MlyI GAGTC 1 cut(s) 985
MroI TCCGGA 1 cut(s) 955
MseI TTAA 2 cut(s) 168, 657
MslI CAYNNNNRTG 2 cut(s) 18, 123
MspI CCGG 7 cut(s) 89, 273, 401, 542, 582, 956, 983
MspR9I CCNGG 3 cut(s) 89, 402, 583
MunI CAATTG 1 cut(s) 265
MwoI GCNNNNNNNGC 4 cut(s) 257, 296, 746, 983
NciI CCSGG 3 cut(s) 89, 402, 583
NdeII GATC 3 cut(s) 351, 428, 650
NlaIII CATG 7 cut(s) 23, 251, 290, 626, 828, 835, 911
NlaIV GGNNCC 1 cut(s) 987
NmuCI GTSAC 1 cut(s) 827
NspI RCATGY 2 cut(s) 251, 828
PagI TCATGA 1 cut(s) 19
PciI ACATGT 1 cut(s) 824
PfeI GAWTC 2 cut(s) 572, 697
PflFI GACNNNGTC 1 cut(s) 131
PflMI CCANNNNNTGG 1 cut(s) 267
PkrI GCNGC 3 cut(s) 301, 304, 882
PleI GAGTC 1 cut(s) 985
PpsI GAGTC 1 cut(s) 985
PscI ACATGT 1 cut(s) 824
PspFI CCCAGC 1 cut(s) 914
PspN4I GGNNCC 1 cut(s) 987
PspPI GGNCC 4 cut(s) 28, 270, 797, 985
PsuI RGATCY 1 cut(s) 351
PsyI GACNNNGTC 1 cut(s) 131
RsaI GTAC 2 cut(s) 336, 465
RsaNI GTAC 2 cut(s) 335, 464
RseI CAYNNNNRTG 2 cut(s) 18, 123
SaqAI TTAA 2 cut(s) 168, 657
SatI GCNGC 3 cut(s) 300, 303, 881
Sau3AI GATC 3 cut(s) 351, 428, 650
Sau96I GGNCC 4 cut(s) 28, 270, 797, 985
SchI GAGTC 1 cut(s) 985
ScrFI CCNGG 3 cut(s) 89, 402, 583
SinI GGWCC 2 cut(s) 28, 797
SmiMI CAYNNNNRTG 2 cut(s) 18, 123
SmlI CTYRAG 2 cut(s) 347, 356
SmoI CTYRAG 2 cut(s) 347, 356
Sse9I AATT 6 cut(s) 113, 265, 342, 448, 802, 942
SsiI CCGC 5 cut(s) 300, 569, 626, 681, 749
SspMI CTAG 2 cut(s) 338, 884
StyD4I CCNGG 3 cut(s) 87, 400, 581
TaaI ACNGT 1 cut(s) 62
TaiI ACGT 1 cut(s) 135
TaqI TCGA 1 cut(s) 308
TasI AATT 6 cut(s) 113, 265, 342, 448, 802, 942
TatI WGTACW 1 cut(s) 334
TauI GCSGC 1 cut(s) 302
TfiI GAWTC 2 cut(s) 572, 697
Tru1I TTAA 2 cut(s) 168, 657
Tru9I TTAA 2 cut(s) 168, 657
TscAI CASTG 1 cut(s) 438
TseFI GTSAC 1 cut(s) 827
TseI GCWGC 2 cut(s) 302, 880
Tsp45I GTSAC 1 cut(s) 827
TspDTI ATGAA 6 cut(s) 8, 17, 353, 803, 848, 987
TspGWI ACGGA 1 cut(s) 139
TspRI CASTG 1 cut(s) 438
Tth111I GACNNNGTC 1 cut(s) 131
Van91I CCANNNNNTGG 1 cut(s) 267
VpaK11BI GGWCC 2 cut(s) 28, 797
XapI RAATTY 1 cut(s) 342
XceI RCATGY 2 cut(s) 251, 828
XspI CTAG 2 cut(s) 338, 884
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.