Rh5DG061900

Histone deacetylase HDT1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0002833
Physical Location & Seq
Forward (+)
5289577 .. 5296248
6672 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG061900.1

Sequence Viewer

Length: 1806 bp
ATGATCCCCTTGCTGCTGAGAGAGGATATATTGTATTTGTTTATATATATATATATATATATATATATATATTCCTTCGTTCCTGGGAAGGTTCTCTTCTTTTCTGAGGACACGCCAGACAGACTGAGTTGTCGAAGCGAAGGACGTTCATCTCCCACCTTTAAAACAGGTGCTGAATTGAAATCTGGCGAGAAGTTGAAAGTGAAGCCAGATGCCGGCGTGGTTTTGCATCTCACACAGGCATGTGTGGGCTTAAATCAAAGATGTCATGGTGTCGTTTATGTGAGCATCGGGGAAGAGAGAAGAGTCTTGGGAAGTCTCTTGCCACCAAGAGTACCTCAATTTTCCTGCGATCTGGTCTTTGACCAAGAATTTCTGCTTTCACACAACTTGGAGATGGGAAGCGTCTTCTTTGCCGTAACTGTTTCCTTGACCACAATTGCTGTGTTGTGTTCTGTCACTAAGCTTGAGGAAACAAAGCAAACTACAAGTAAGACCAAATCTTCTGATGAGAATCCAATCTTTGAGGAAAAGAGAGAGCCTCTTAGGCAAGCAAGGCCAGCAATAGGGAAGACCAGATCTTCTGTTAAGAATCCAGTCATTGAGGAAAATAGAGTACCTATTGACAAAGCTGACTTTGTTGTGCGCCCACTGGTGGTGAGAAGGCCAGAGAACATAAGTAAGGAGCTCGAATTCTATAGAACTATTTTTGAGGCTGAACCGATTGCTGGCCCCCAGATTGGGTCTGAAAGATCACACGAGTTCAAGATTGGAAATAATTCATTATATGTTGTTGCTGCTTCGACTATTGAGGAACTTGAGCCTCTTGGGCCTGCTCTTTGTGTGGAGACGGGAGATGTAGCAACTTTTATTGAGAAAGCGAAAAATGCTGGGTGGGAGTGCTCCGTCCTTGAAAGGTATCGGCCCAATATCACGCCAGATGATAAGTTGAGTGGCACTAGAATGAGAACTAAATTCGGTCAGATCTGTTACATCTGTCAGACACCCCAAACAAGAAACAATGAAGAAGAGCAGCAAACAAAAATTAAGTCCATATGCCCTACAATGCTATTTTATGAAGATGAGTTTGATGAGGCAGTTGCAAATTATGAGGCTGTTTTCGGAAGGTCTCAGGGCTCGTTCTTTCAGTTGTTCCGGAGACGATCTACCTCTTTTTCAGACTGCCTCTATGCTGCAGCCAAGGATAGGGGTATTGGCAGTTCTACATGTCTCTGCATAGAGCCGGAGGATATTGTCATTTTCATGGAGTCGTTCTTTAATTTGAAGTCATCCGTAGATTTCTTCTATCTCAATTGTGAAGTGGTTCTACATGACTGGGGAAAGACAGTTGTGAGATTGATATCTCCTAAGCGTAGTCACACTCTTTATGTGTACAGCAGCAAGCCATTATTGACTGTGCTCTCATGTAACGTAAAGCATGGTGCTATACAGCCACTGATTCAGTTCCTTGGCTCAGTCAGTCAAGTAAAATGGGTCAAAATCCATGTAGATGAAATTCCTCGTTGCTTGTCCTTCCCTTACCCGGATTTGCTGATTATTGGTGATGAGAAGATACTTACTCTTGAGAGGATGGAAAAAAAATTGTCTTCAAGGAAGTCGGATACCAAGATATTGCAGGTTCATGGGCAACCAGTATCAGAAGACATGAAAAGATTGTTGAACAGGCATGAAGCAAAATATGTAGGTTTGCCTTTGACAATTGAGAATGTTGAACAAATTTATTCAAGTCTTTCTACTCCAAAATCAGACAAGTGGGTCTATCTTCCTCACTTAGAATGGGCATGA
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

601

Amino Acids

68.3

Weight (kDa)

6.63

Isoelectric Point (pI)

47.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPL PF17800 57 - 129 1.9e-07 Nucleoplasmin-like 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)
AasI GACNNNNNNGTC 2 cut(s) 129, 1775
Acc36I ACCTGC 1 cut(s) 1627
AccIII TCCGGA 1 cut(s) 1155
AcsI RAATTY 5 cut(s) 371, 692, 974, 1515, 1737
AfaI GTAC 3 cut(s) 336, 618, 1394
AfiI CCNNNNNNNGG 8 cut(s) 215, 566, 655, 728, 740, 741, 1206, 1543
AflIII ACRYGT 1 cut(s) 1226
AgsI TTSAA 9 cut(s) 181, 199, 766, 914, 1285, 1611, 1681, 1733, 1746
AjnI CCWGG 1 cut(s) 82
AluBI AGCT 3 cut(s) 466, 632, 688
AluI AGCT 3 cut(s) 466, 632, 688
Alw21I GWGCWC 3 cut(s) 690, 905, 1422
Alw26I GTCTC 5 cut(s) 323, 842, 1134, 1153, 1235
AlwNI CAGNNNCTG 2 cut(s) 173, 1456
Aor13HI TCCGGA 1 cut(s) 1155
AoxI GGCC 5 cut(s) 557, 665, 730, 830, 923
ApeKI GCWGC 6 cut(s) 13, 797, 1033, 1193, 1196, 1398
ApoI RAATTY 5 cut(s) 371, 692, 974, 1515, 1737
ArsI GACNNNNNNTTYG 2 cut(s) 1034, 1066
Asp700I GAANNNNTTC 2 cut(s) 778, 1323
AspLEI GCGC 1 cut(s) 648
AspS9I GGNCC 3 cut(s) 731, 830, 924
AsuC2I CCSGG 1 cut(s) 1544
AsuHPI GGTGA 2 cut(s) 670, 1574
BanII GRGCYC 2 cut(s) 690, 1139
BarI GAAGNNNNNNTAC 2 cut(s) 1311, 1343
BauI CACGAG 1 cut(s) 758
BbsI GAAGAC 4 cut(s) 400, 578, 1599, 1668
Bbv12I GWGCWC 3 cut(s) 690, 905, 1422
BbvI GCAGC 5 cut(s) 784, 1045, 1180, 1208, 1410
BccI CCATC 2 cut(s) 391, 1585
BceAI ACGGC 1 cut(s) 401
BciT130I CCWGG 1 cut(s) 84
BciVI GTATCC 1 cut(s) 1615
BcnI CCSGG 1 cut(s) 1544
BcoDI GTCTC 5 cut(s) 323, 842, 1134, 1153, 1235
BfaI CTAG 1 cut(s) 960
BfmI CTRYAG 2 cut(s) 697, 1194
BfuAI ACCTGC 1 cut(s) 1627
BfuI GTATCC 1 cut(s) 1615
BglI GCCNNNNNGGC 2 cut(s) 547, 829
BglII AGATCT 2 cut(s) 578, 984
BisI GCNGC 6 cut(s) 14, 798, 1034, 1194, 1197, 1399
BlsI GCNGC 6 cut(s) 15, 799, 1035, 1195, 1198, 1400
Bme1390I CCNGG 2 cut(s) 84, 1544
BmgT120I GGNCC 3 cut(s) 731, 830, 924
BmiI GGNNCC 1 cut(s) 733
BmrFI CCNGG 2 cut(s) 84, 1544
BmrI ACTGGG 1 cut(s) 1345
BmsI GCATC 3 cut(s) 202, 238, 297
BmuI ACTGGG 1 cut(s) 1345
BpiI GAAGAC 4 cut(s) 400, 578, 1599, 1668
BplI GAGNNNNNCTC 2 cut(s) 526, 558
Bpu10I CCTNAGC 1 cut(s) 1368
BpuEI CTTGAG 3 cut(s) 488, 839, 1604
BpuMI CCSGG 1 cut(s) 1544
BsaBI GATNNNNATC 2 cut(s) 513, 1360
BsaI GGTCTC 1 cut(s) 1134
BsaJI CCNNGG 3 cut(s) 83, 1200, 1468
BsaWI WCCGGW 1 cut(s) 1155
Bsc4I CCNNNNNNNGG 8 cut(s) 215, 566, 655, 728, 740, 741, 1206, 1543
Bse118I RCCGGY 1 cut(s) 215
Bse1I ACTGG 4 cut(s) 596, 657, 1340, 1652
Bse8I GATNNNNATC 2 cut(s) 513, 1360
BseAI TCCGGA 1 cut(s) 1155
BseBI CCWGG 1 cut(s) 84
BseDI CCNNGG 3 cut(s) 83, 1200, 1468
BseGI GGATG 2 cut(s) 1289, 1596
BseJI GATNNNNATC 2 cut(s) 513, 1360
BseLI CCNNNNNNNGG 8 cut(s) 215, 566, 655, 728, 740, 741, 1206, 1543
BseMII CTCAG 5 cut(s) 8, 96, 116, 1145, 1488
BseNI ACTGG 4 cut(s) 596, 657, 1340, 1652
BseXI GCAGC 5 cut(s) 784, 1045, 1180, 1208, 1410
BseYI CCCAGC 1 cut(s) 890
BshFI GGCC 5 cut(s) 559, 667, 732, 832, 925
BsiHKAI GWGCWC 3 cut(s) 690, 905, 1422
BsiSI CCGG 4 cut(s) 216, 1156, 1244, 1544
BslI CCNNNNNNNGG 8 cut(s) 215, 566, 655, 728, 740, 741, 1206, 1543
BsmAI GTCTC 5 cut(s) 323, 842, 1134, 1153, 1235
BsmBI CGTCTC 2 cut(s) 842, 1153
BsnI GGCC 5 cut(s) 559, 667, 732, 832, 925
Bso31I GGTCTC 1 cut(s) 1134
Bsp1286I GDGCHC 4 cut(s) 690, 905, 1139, 1422
Bsp13I TCCGGA 1 cut(s) 1155
Bsp1407I TGTACA 1 cut(s) 1392
Bsp143I GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
BspANI GGCC 5 cut(s) 559, 667, 732, 832, 925
BspCNI CTCAG 5 cut(s) 9, 97, 117, 1144, 1487
BspEI TCCGGA 1 cut(s) 1155
BspLI GGNNCC 1 cut(s) 733
BspMAI CTGCAG 1 cut(s) 1198
BspMI ACCTGC 1 cut(s) 1627
BspQI GCTCTTC 1 cut(s) 1023
BspTNI GGTCTC 1 cut(s) 1134
BsrFI RCCGGY 1 cut(s) 215
BsrGI TGTACA 1 cut(s) 1392
BsrI ACTGG 4 cut(s) 596, 657, 1340, 1652
BssAI RCCGGY 1 cut(s) 215
BssECI CCNNGG 3 cut(s) 83, 1200, 1468
BssMI GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
BssSI CACGAG 1 cut(s) 758
BssT1I CCWWGG 2 cut(s) 1200, 1468
Bst2BI CACGAG 1 cut(s) 758
Bst2UI CCWGG 1 cut(s) 84
Bst4CI ACNGT 3 cut(s) 424, 1348, 1417
Bst6I CTCTTC 4 cut(s) 101, 291, 298, 1023
BstAUI TGTACA 1 cut(s) 1392
BstC8I GCNNGC 6 cut(s) 217, 552, 561, 730, 834, 1403
BstDEI CTNAG 9 cut(s) 17, 105, 125, 462, 545, 1131, 1368, 1474, 1792
BstF5I GGATG 2 cut(s) 1289, 1596
BstHHI GCGC 1 cut(s) 648
BstKTI GATC 6 cut(s) 6, 355, 581, 755, 987, 1166
BstMAI GTCTC 5 cut(s) 323, 842, 1134, 1153, 1235
BstMBI GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
BstMWI GCNNNNNNNGC 5 cut(s) 547, 556, 560, 829, 887
BstNI CCWGG 1 cut(s) 84
BstNSI RCATGY 2 cut(s) 246, 1230
BstSCI CCNGG 2 cut(s) 82, 1542
BstSFI CTRYAG 2 cut(s) 697, 1194
BstV1I GCAGC 5 cut(s) 784, 1045, 1180, 1208, 1410
BstV2I GAAGAC 4 cut(s) 400, 578, 1599, 1668
BstX2I RGATCY 2 cut(s) 578, 984
BstYI RGATCY 2 cut(s) 578, 984
BsuI GTATCC 1 cut(s) 1615
BsuRI GGCC 5 cut(s) 559, 667, 732, 832, 925
BtsCI GGATG 2 cut(s) 1289, 1596
BtsIMutI CAGTG 2 cut(s) 650, 1454
BveI ACCTGC 1 cut(s) 1627
Cac8I GCNNGC 6 cut(s) 217, 552, 561, 730, 834, 1403
CaiI CAGNNNCTG 2 cut(s) 173, 1456
CfoI GCGC 1 cut(s) 648
Cfr10I RCCGGY 1 cut(s) 215
Cfr13I GGNCC 3 cut(s) 731, 830, 924
CseI GACGC 1 cut(s) 394
Csp6I GTAC 3 cut(s) 335, 617, 1393
CviQI GTAC 3 cut(s) 335, 617, 1393
DdeI CTNAG 9 cut(s) 17, 105, 125, 462, 545, 1131, 1368, 1474, 1792
DpnI GATC 6 cut(s) 5, 354, 580, 754, 986, 1165
DpnII GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
DraI TTTAAA 1 cut(s) 163
DrdI GACNNNNNNGTC 2 cut(s) 129, 1775
DseDI GACNNNNNNGTC 2 cut(s) 129, 1775
Eam1104I CTCTTC 4 cut(s) 101, 291, 298, 1023
EarI CTCTTC 4 cut(s) 101, 291, 298, 1023
Ecl136II GAGCTC 1 cut(s) 688
Eco130I CCWWGG 2 cut(s) 1200, 1468
Eco24I GRGCYC 2 cut(s) 690, 1139
Eco31I GGTCTC 1 cut(s) 1134
Eco32I GATATC 1 cut(s) 1362
Eco53kI GAGCTC 1 cut(s) 688
EcoICRI GAGCTC 1 cut(s) 688
EcoRI GAATTC 1 cut(s) 692
EcoRII CCWGG 1 cut(s) 82
EcoRV GATATC 1 cut(s) 1362
EcoT14I CCWWGG 2 cut(s) 1200, 1468
EcoT38I GRGCYC 2 cut(s) 690, 1139
ErhI CCWWGG 2 cut(s) 1200, 1468
Esp3I CGTCTC 2 cut(s) 842, 1153
FalI AAGNNNNNCTT 2 cut(s) 80, 112
FauNDI CATATG 1 cut(s) 1055
Fnu4HI GCNGC 6 cut(s) 14, 798, 1034, 1194, 1197, 1399
FokI GGATG 2 cut(s) 1276, 1603
FriOI GRGCYC 2 cut(s) 690, 1139
Fsp4HI GCNGC 6 cut(s) 14, 798, 1034, 1194, 1197, 1399
FspBI CTAG 1 cut(s) 960
GlaI GCGC 1 cut(s) 647
GluI GCNGC 6 cut(s) 14, 798, 1034, 1194, 1197, 1399
GsaI CCCAGC 1 cut(s) 894
HaeIII GGCC 5 cut(s) 559, 667, 732, 832, 925
HapII CCGG 4 cut(s) 216, 1156, 1244, 1544
HgaI GACGC 1 cut(s) 394
HhaI GCGC 1 cut(s) 648
Hin6I GCGC 1 cut(s) 646
HinP1I GCGC 1 cut(s) 646
HindIII AAGCTT 1 cut(s) 464
HinfI GANTC 5 cut(s) 306, 514, 592, 1268, 1459
HpaII CCGG 4 cut(s) 216, 1156, 1244, 1544
HphI GGTGA 2 cut(s) 670, 1574
Hpy166II GTNNAC 1 cut(s) 1393
Hpy188III TCNNGA 3 cut(s) 766, 1156, 1583
Hpy8I GTNNAC 1 cut(s) 1393
HpyAV CCTTC 6 cut(s) 82, 85, 134, 657, 1119, 1543
HpyCH4III ACNGT 3 cut(s) 424, 1348, 1417
HpyCH4IV ACGT 2 cut(s) 145, 1431
HpyCH4V TGCA 5 cut(s) 229, 1103, 1196, 1236, 1636
HpyF10VI GCNNNNNNNGC 5 cut(s) 547, 556, 560, 829, 887
HpyF3I CTNAG 9 cut(s) 17, 105, 125, 462, 545, 1131, 1368, 1474, 1792
HpySE526I ACGT 2 cut(s) 145, 1431
HspAI GCGC 1 cut(s) 646
Kpn2I TCCGGA 1 cut(s) 1155
KroI GCCGGC 1 cut(s) 215
KroNI GCCGGC 1 cut(s) 217
Kzo9I GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
LguI GCTCTTC 1 cut(s) 1023
LmnI GCTCC 2 cut(s) 685, 908
Lsp1109I GCAGC 5 cut(s) 784, 1045, 1180, 1208, 1410
LweI GCATC 3 cut(s) 202, 238, 297
MaeI CTAG 1 cut(s) 960
MaeII ACGT 2 cut(s) 145, 1431
MaeIII GTNAC 5 cut(s) 418, 457, 989, 1376, 1427
MalI GATC 6 cut(s) 5, 354, 580, 754, 986, 1165
MboI GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
MfeI CAATTG 3 cut(s) 438, 1312, 1719
MflI RGATCY 2 cut(s) 578, 984
MhlI GDGCHC 4 cut(s) 690, 905, 1139, 1422
MlyI GAGTC 2 cut(s) 315, 1277
MmeI TCCRAC 1 cut(s) 1599
MroI TCCGGA 1 cut(s) 1155
MroNI GCCGGC 1 cut(s) 215
MroXI GAANNNNTTC 2 cut(s) 778, 1323
MseI TTAA 5 cut(s) 162, 254, 588, 1047, 1278
MslI CAYNNNNRTG 4 cut(s) 241, 962, 1262, 1509
MspI CCGG 4 cut(s) 216, 1156, 1244, 1544
MspR9I CCNGG 2 cut(s) 84, 1544
MunI CAATTG 3 cut(s) 438, 1312, 1719
MvaI CCWGG 1 cut(s) 84
MwoI GCNNNNNNNGC 5 cut(s) 547, 556, 560, 829, 887
NaeI GCCGGC 1 cut(s) 217
NciI CCSGG 1 cut(s) 1544
NdeI CATATG 1 cut(s) 1055
NdeII GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
NgoMIV GCCGGC 1 cut(s) 215
NlaIV GGNNCC 1 cut(s) 733
NmuCI GTSAC 2 cut(s) 457, 1376
NspI RCATGY 2 cut(s) 246, 1230
PciI ACATGT 1 cut(s) 1226
PciSI GCTCTTC 1 cut(s) 1023
PdiI GCCGGC 1 cut(s) 217
PdmI GAANNNNTTC 2 cut(s) 778, 1323
PfeI GAWTC 3 cut(s) 514, 592, 1459
PkrI GCNGC 6 cut(s) 15, 799, 1035, 1195, 1198, 1400
PleI GAGTC 2 cut(s) 314, 1276
PpsI GAGTC 2 cut(s) 314, 1276
PscI ACATGT 1 cut(s) 1226
Psp124BI GAGCTC 1 cut(s) 690
Psp6I CCWGG 1 cut(s) 82
PspFI CCCAGC 1 cut(s) 890
PspGI CCWGG 1 cut(s) 82
PspN4I GGNNCC 1 cut(s) 733
PspPI GGNCC 3 cut(s) 731, 830, 924
PsrI GAACNNNNNNTAC 2 cut(s) 1204, 1236
PstI CTGCAG 1 cut(s) 1198
PstNI CAGNNNCTG 2 cut(s) 173, 1456
PsuI RGATCY 2 cut(s) 578, 984
RsaI GTAC 3 cut(s) 336, 618, 1394
RsaNI GTAC 3 cut(s) 335, 617, 1393
RseI CAYNNNNRTG 4 cut(s) 241, 962, 1262, 1509
SacI GAGCTC 1 cut(s) 690
SapI GCTCTTC 1 cut(s) 1023
SaqAI TTAA 5 cut(s) 162, 254, 588, 1047, 1278
SatI GCNGC 6 cut(s) 14, 798, 1034, 1194, 1197, 1399
Sau3AI GATC 6 cut(s) 3, 352, 578, 752, 984, 1163
Sau96I GGNCC 3 cut(s) 731, 830, 924
SchI GAGTC 2 cut(s) 315, 1277
ScrFI CCNGG 2 cut(s) 84, 1544
SduI GDGCHC 4 cut(s) 690, 905, 1139, 1422
SfaNI GCATC 3 cut(s) 202, 238, 297
SfcI CTRYAG 2 cut(s) 697, 1194
SmiMI CAYNNNNRTG 4 cut(s) 241, 962, 1262, 1509
SmlI CTYRAG 3 cut(s) 467, 818, 1583
SmoI CTYRAG 3 cut(s) 467, 818, 1583
SspMI CTAG 1 cut(s) 960
SstI GAGCTC 1 cut(s) 690
StyD4I CCNGG 2 cut(s) 82, 1542
StyI CCWWGG 2 cut(s) 1200, 1468
TaaI ACNGT 3 cut(s) 424, 1348, 1417
TaiI ACGT 2 cut(s) 148, 1434
TaqI TCGA 3 cut(s) 133, 690, 803
TaqII GACCGA 1 cut(s) 968
TatI WGTACW 1 cut(s) 1392
TfiI GAWTC 3 cut(s) 514, 592, 1459
Tru1I TTAA 5 cut(s) 162, 254, 588, 1047, 1278
Tru9I TTAA 5 cut(s) 162, 254, 588, 1047, 1278
TscAI CASTG 2 cut(s) 657, 1461
TseFI GTSAC 2 cut(s) 457, 1376
TseI GCWGC 6 cut(s) 13, 797, 1033, 1193, 1196, 1398
Tsp45I GTSAC 2 cut(s) 457, 1376
TspDTI ATGAA 9 cut(s) 138, 771, 1038, 1092, 1252, 1527, 1631, 1682, 1704
TspGWI ACGGA 2 cut(s) 895, 1282
TspRI CASTG 2 cut(s) 657, 1461
XapI RAATTY 5 cut(s) 371, 692, 974, 1515, 1737
XceI RCATGY 2 cut(s) 246, 1230
XmnI GAANNNNTTC 2 cut(s) 778, 1323
XspI CTAG 1 cut(s) 960
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.