Rroxscaffold_1G00025000

Histone deacetylase HDT1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002189
Physical Location & Seq
Reverse (-)
31148498 .. 31151662
3165 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00025000.1

Sequence Viewer

Length: 903 bp
ATGGAGTTCTGGGGTGTTGAAGTGAAGGCTGGAGAGCCCCTGAGTGTAGTGCCAGACCAAGGCAATGTGGTGCATTTGTCACAGGCTTGTCTAGGCGAGTCAAAGAAGGCAGCTGACAGCGTTGTTATCTATGGAAAGACTGGAGAGAAGAAGCTTGTGTTGGGACATCTCATTCCTGGCCAAATCCCTCAGTTGTCGTTTGATTTGGTCTTTGATGACGAGTTTGAGCTATCCCACAACTGGAAAAGTGGTAGTGTCCACTTTGCTGGATATCAATCCGTAATGGGAGATGATGAATCGGATGATGAGTTTGAATCAGAGTCAGAAGAAGAGGAGGAAGAACTCCCAGTGATTGCTGCTGCAGAGAATGGAAAAGTTGAAAATGCAAAACCAGCTATAGCCAAGAGCAATGCTGTCAAACCTGAATCTTCTGGAAAGCAAAAGGTTAAGATTGAAGAACCAATCAAAGTCGAGGCTGATGAAGATGATTCCGCTTCTGACATGGATGACTCAGATGACTTATTGGATGAAGATGACTCATCGGATGATGATGATGATGAAAGTGAGGATGATTCTGATGAGGAAGATGAAGAGACACCTACTCCTAAGAAGCCTGAATCTAAGAAAAGAGCCCAGGTCTCTGGATCAGTCAAAACTCCAGTTTCTGCTAAGAAGGCAAAGATAGTCACCAGTACTCCTCAGAAGACTGATGGTAAGAAGGGCGGCCACACAGATACTCCACACCCTGCAAAGAAGGGGAAGACTCCTGCTACTGATAAATCCAAGACACAAACTCCAAAGTCTGCTGGTGGCAATTTCTCCTGCGGTTCCTGCAGCAAGTCATTTGGTTCAGATGGTGCTCTTCAGTCTCACAACAAGGCTAAGCATAGTGCTGGAAAGTAG
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

300

Amino Acids

32.04

Weight (kDa)

4.61

Isoelectric Point (pI)

43.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPL PF17800 3 - 91 4.6e-18 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)
AciI CCGC 3 cut(s) 492, 723, 825
AclWI GGATC 1 cut(s) 652
AcoI YGGCCR 2 cut(s) 178, 724
AcuI CTGAAG 1 cut(s) 848
AfaI GTAC 1 cut(s) 694
AfiI CCNNNNNNNGG 2 cut(s) 59, 240
AgsI TTSAA 4 cut(s) 20, 314, 380, 455
AjnI CCWGG 2 cut(s) 175, 633
AjuI GAANNNNNNNTTGG 2 cut(s) 143, 175
AluBI AGCT 4 cut(s) 113, 154, 229, 395
AluI AGCT 4 cut(s) 113, 154, 229, 395
Alw21I GWGCWC 1 cut(s) 862
Alw26I GTCTC 3 cut(s) 587, 643, 873
AlwI GGATC 1 cut(s) 652
AlwNI CAGNNNCTG 1 cut(s) 665
AoxI GGCC 2 cut(s) 178, 724
ApeKI GCWGC 4 cut(s) 110, 356, 359, 834
AsuHPI GGTGA 1 cut(s) 679
BalI TGGCCA 1 cut(s) 180
BanII GRGCYC 2 cut(s) 39, 634
BbsI GAAGAC 2 cut(s) 710, 767
Bbv12I GWGCWC 1 cut(s) 862
BbvI GCAGC 4 cut(s) 122, 343, 346, 846
BccI CCATC 2 cut(s) 704, 848
BciT130I CCWGG 2 cut(s) 177, 635
BcoDI GTCTC 3 cut(s) 587, 643, 873
BfaI CTAG 1 cut(s) 92
BfmI CTRYAG 3 cut(s) 360, 396, 832
BisI GCNGC 5 cut(s) 111, 357, 360, 724, 835
BlpI GCTNAGC 1 cut(s) 882
BlsI GCNGC 5 cut(s) 112, 358, 361, 725, 836
BmcAI AGTACT 1 cut(s) 694
Bme1390I CCNGG 2 cut(s) 177, 635
BmiI GGNNCC 1 cut(s) 829
BmrFI CCNGG 2 cut(s) 177, 635
BmrI ACTGGG 1 cut(s) 341
BmuI ACTGGG 1 cut(s) 341
BpiI GAAGAC 2 cut(s) 710, 767
BpmI CTGGAG 3 cut(s) 51, 162, 642
Bpu1102I GCTNAGC 1 cut(s) 882
BsaBI GATNNNNATC 1 cut(s) 274
BsaI GGTCTC 1 cut(s) 643
BsaJI CCNNGG 2 cut(s) 58, 633
BsaXI ACNNNNNCTCC 8 cut(s) 586, 616, 679, 709, 721, 751, 778, 808
Bsc4I CCNNNNNNNGG 2 cut(s) 59, 240
Bse1I ACTGG 5 cut(s) 145, 245, 347, 659, 690
Bse3DI GCAATG 2 cut(s) 70, 415
Bse8I GATNNNNATC 1 cut(s) 274
BseBI CCWGG 2 cut(s) 177, 635
BseDI CCNNGG 2 cut(s) 58, 633
BseGI GGATG 5 cut(s) 307, 511, 532, 550, 574
BseJI GATNNNNATC 1 cut(s) 274
BseLI CCNNNNNNNGG 2 cut(s) 59, 240
BseMI GCAATG 2 cut(s) 70, 415
BseMII CTCAG 4 cut(s) 32, 203, 525, 713
BseNI ACTGG 5 cut(s) 145, 245, 347, 659, 690
BseRI GAGGAG 2 cut(s) 347, 687
BseXI GCAGC 4 cut(s) 122, 343, 346, 846
BshFI GGCC 2 cut(s) 180, 726
BsiHKAI GWGCWC 1 cut(s) 862
BslFI GGGAC 1 cut(s) 177
BslI CCNNNNNNNGG 2 cut(s) 59, 240
BsmAI GTCTC 3 cut(s) 587, 643, 873
BsmFI GGGAC 1 cut(s) 177
BsnI GGCC 2 cut(s) 180, 726
Bso31I GGTCTC 1 cut(s) 643
Bsp1286I GDGCHC 3 cut(s) 39, 634, 862
Bsp143I GATC 1 cut(s) 644
Bsp1720I GCTNAGC 1 cut(s) 882
BspACI CCGC 3 cut(s) 492, 723, 825
BspANI GGCC 2 cut(s) 180, 726
BspCNI CTCAG 4 cut(s) 33, 202, 524, 712
BspLI GGNNCC 1 cut(s) 829
BspMAI CTGCAG 2 cut(s) 364, 836
BspPI GGATC 1 cut(s) 652
BspQI GCTCTTC 1 cut(s) 867
BspTNI GGTCTC 1 cut(s) 643
BsrDI GCAATG 2 cut(s) 70, 415
BsrI ACTGG 5 cut(s) 145, 245, 347, 659, 690
BssECI CCNNGG 2 cut(s) 58, 633
BssMI GATC 1 cut(s) 644
BssT1I CCWWGG 1 cut(s) 58
Bst2UI CCWGG 2 cut(s) 177, 635
Bst6I CTCTTC 3 cut(s) 324, 585, 867
BstDEI CTNAG 8 cut(s) 41, 189, 511, 606, 621, 669, 699, 882
BstF5I GGATG 5 cut(s) 307, 511, 532, 550, 574
BstKTI GATC 1 cut(s) 647
BstMAI GTCTC 3 cut(s) 587, 643, 873
BstMBI GATC 1 cut(s) 644
BstMWI GCNNNNNNNGC 3 cut(s) 392, 674, 831
BstNI CCWGG 2 cut(s) 177, 635
BstSCI CCNGG 2 cut(s) 175, 633
BstSFI CTRYAG 3 cut(s) 360, 396, 832
BstV1I GCAGC 4 cut(s) 122, 343, 346, 846
BstV2I GAAGAC 2 cut(s) 710, 767
BstXI CCANNNNNNTGG 2 cut(s) 266, 641
BsuRI GGCC 2 cut(s) 180, 726
BtsCI GGATG 5 cut(s) 307, 511, 532, 550, 574
BtsIMutI CAGTG 1 cut(s) 354
CaiI CAGNNNCTG 1 cut(s) 665
Csp6I GTAC 1 cut(s) 693
CviAII CATG 1 cut(s) 502
CviQI GTAC 1 cut(s) 693
DdeI CTNAG 8 cut(s) 41, 189, 511, 606, 621, 669, 699, 882
DpnI GATC 1 cut(s) 646
DpnII GATC 1 cut(s) 644
EaeI YGGCCR 2 cut(s) 178, 724
Eam1104I CTCTTC 3 cut(s) 324, 585, 867
EarI CTCTTC 3 cut(s) 324, 585, 867
Eco130I CCWWGG 1 cut(s) 58
Eco24I GRGCYC 2 cut(s) 39, 634
Eco31I GGTCTC 1 cut(s) 643
Eco32I GATATC 1 cut(s) 272
Eco57I CTGAAG 1 cut(s) 848
EcoRII CCWGG 2 cut(s) 175, 633
EcoRV GATATC 1 cut(s) 272
EcoT14I CCWWGG 1 cut(s) 58
EcoT38I GRGCYC 2 cut(s) 39, 634
ErhI CCWWGG 1 cut(s) 58
FaeI CATG 1 cut(s) 505
FaiI YATR 4 cut(s) 132, 398, 503, 888
FaqI GGGAC 1 cut(s) 177
FatI CATG 1 cut(s) 501
Fnu4HI GCNGC 5 cut(s) 111, 357, 360, 724, 835
FokI GGATG 5 cut(s) 314, 518, 539, 557, 581
FriOI GRGCYC 2 cut(s) 39, 634
Fsp4HI GCNGC 5 cut(s) 111, 357, 360, 724, 835
FspBI CTAG 1 cut(s) 92
GluI GCNGC 5 cut(s) 111, 357, 360, 724, 835
GsuI CTGGAG 3 cut(s) 51, 162, 642
HaeIII GGCC 2 cut(s) 180, 726
Hin1II CATG 1 cut(s) 505
HindIII AAGCTT 1 cut(s) 152
HphI GGTGA 1 cut(s) 679
Hpy166II GTNNAC 1 cut(s) 259
Hpy188I TCNGA 9 cut(s) 301, 319, 325, 499, 514, 544, 577, 702, 853
Hpy188III TCNNGA 2 cut(s) 432, 642
Hpy8I GTNNAC 1 cut(s) 259
HpyAV CCTTC 5 cut(s) 19, 100, 667, 712, 748
HpyCH4V TGCA 5 cut(s) 73, 362, 386, 749, 834
HpyF10VI GCNNNNNNNGC 3 cut(s) 392, 674, 831
HpyF3I CTNAG 8 cut(s) 41, 189, 511, 606, 621, 669, 699, 882
Hsp92II CATG 1 cut(s) 505
Kzo9I GATC 1 cut(s) 644
LguI GCTCTTC 1 cut(s) 867
Lsp1109I GCAGC 4 cut(s) 122, 343, 346, 846
MaeI CTAG 1 cut(s) 92
MaeIII GTNAC 2 cut(s) 78, 685
MalI GATC 1 cut(s) 646
MboI GATC 1 cut(s) 644
MhlI GDGCHC 3 cut(s) 39, 634, 862
MlsI TGGCCA 1 cut(s) 180
MluCI AATT 1 cut(s) 814
MluNI TGGCCA 1 cut(s) 180
MlyI GAGTC 5 cut(s) 107, 329, 503, 530, 757
MnlI CCTC 7 cut(s) 198, 325, 328, 466, 559, 574, 708
Mox20I TGGCCA 1 cut(s) 180
MscI TGGCCA 1 cut(s) 180
MseI TTAA 1 cut(s) 447
Msp20I TGGCCA 1 cut(s) 180
MspA1I CMGCKG 1 cut(s) 113
MspR9I CCNGG 2 cut(s) 177, 635
MvaI CCWGG 2 cut(s) 177, 635
MwoI GCNNNNNNNGC 3 cut(s) 392, 674, 831
NdeII GATC 1 cut(s) 644
NlaIII CATG 1 cut(s) 505
NlaIV GGNNCC 1 cut(s) 829
NmuCI GTSAC 2 cut(s) 78, 685
PciSI GCTCTTC 1 cut(s) 867
PfeI GAWTC 6 cut(s) 296, 314, 425, 488, 572, 617
PkrI GCNGC 5 cut(s) 112, 358, 361, 725, 836
PleI GAGTC 5 cut(s) 106, 328, 503, 530, 757
PpsI GAGTC 5 cut(s) 106, 328, 503, 530, 757
Psp6I CCWGG 2 cut(s) 175, 633
PspGI CCWGG 2 cut(s) 175, 633
PspN4I GGNNCC 1 cut(s) 829
PstI CTGCAG 2 cut(s) 364, 836
PstNI CAGNNNCTG 1 cut(s) 665
PvuII CAGCTG 1 cut(s) 113
RsaI GTAC 1 cut(s) 694
RsaNI GTAC 1 cut(s) 693
SapI GCTCTTC 1 cut(s) 867
SaqAI TTAA 1 cut(s) 447
SatI GCNGC 5 cut(s) 111, 357, 360, 724, 835
Sau3AI GATC 1 cut(s) 644
ScaI AGTACT 1 cut(s) 694
SchI GAGTC 5 cut(s) 107, 329, 503, 530, 757
ScrFI CCNGG 2 cut(s) 177, 635
SduI GDGCHC 3 cut(s) 39, 634, 862
SetI ASST 8 cut(s) 115, 156, 231, 397, 424, 447, 601, 639
SfcI CTRYAG 3 cut(s) 360, 396, 832
Sse9I AATT 1 cut(s) 814
SsiI CCGC 3 cut(s) 492, 723, 825
SspMI CTAG 1 cut(s) 92
StyD4I CCNGG 2 cut(s) 175, 633
StyI CCWWGG 1 cut(s) 58
TaqI TCGA 1 cut(s) 471
TasI AATT 1 cut(s) 814
TatI WGTACW 1 cut(s) 692
TauI GCSGC 1 cut(s) 726
TfiI GAWTC 6 cut(s) 296, 314, 425, 488, 572, 617
Tru1I TTAA 1 cut(s) 447
Tru9I TTAA 1 cut(s) 447
TscAI CASTG 1 cut(s) 354
TseFI GTSAC 2 cut(s) 78, 685
TseI GCWGC 4 cut(s) 110, 356, 359, 834
Tsp45I GTSAC 2 cut(s) 78, 685
TspDTI ATGAA 5 cut(s) 309, 495, 543, 573, 603
TspGWI ACGGA 1 cut(s) 268
TspRI CASTG 1 cut(s) 354
XspI CTAG 1 cut(s) 92
ZrmI AGTACT 1 cut(s) 694
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.