AT5G53940

Belongs to the yippee family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0004657
Physical Location & Seq
Reverse (-)
21896987 .. 21898631
1645 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G53940.1

Sequence Viewer

Length: 390 bp
ATGGGAAGGATATTCACGGTGGAGCTTGAAGGAAGATCTTACAGATGCAGGTTCTGCAGAACCCATCTCGCTCTTCCCGATGATCTTGTCTCTCGGTCGTTTCATTGCCGTAGAGGAAAGGCTTACCTCTTCAACCGTTCGGTGAACATAAGTATGGGTCCTCTAGAGGAAAGACTGATGCTTTCCGGTATGCACACCGTAGCTGACATTTTCTGCTGCTGTTGTGGACAGAATGTTGGCTGGAAATACGAATCAGCGCACGAGAAAGCTCAGAAGTATAAAGAAGGCAAATTTGTTCTGGAAAGAGGAAGGATCGTGGATGAAATCGATTTATCAACTGAGGTTTATATCGATACTCATGGTAGCACAAGCGACACAGAAGATTCTTAA
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
Yippee-Mis18

Protein Analysis

129

Amino Acids

14.81

Weight (kDa)

6.51

Isoelectric Point (pI)

34.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Yippee-Mis18 PF03226 14 - 105 2.6e-11 Yippee zinc-binding/DNA-binding /Mis18, centromere assembly
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) 39
AclWI GGATC 1 cut(s) 320
AcsI RAATTY 1 cut(s) 290
AgsI TTSAA 2 cut(s) 29, 133
AluBI AGCT 3 cut(s) 25, 203, 269
AluI AGCT 3 cut(s) 25, 203, 269
Alw26I GTCTC 1 cut(s) 94
AlwI GGATC 1 cut(s) 320
AlwNI CAGNNNCTG 1 cut(s) 54
ApeKI GCWGC 1 cut(s) 216
ApoI RAATTY 1 cut(s) 290
AspLEI GCGC 1 cut(s) 259
AspS9I GGNCC 1 cut(s) 158
AsuHPI GGTGA 1 cut(s) 154
AvaII GGWCC 1 cut(s) 158
BauI CACGAG 1 cut(s) 260
BbvI GCAGC 1 cut(s) 203
BccI CCATC 1 cut(s) 72
BceAI ACGGC 1 cut(s) 93
BcoDI GTCTC 1 cut(s) 94
BfaI CTAG 1 cut(s) 164
BfmI CTRYAG 1 cut(s) 55
BfuAI ACCTGC 1 cut(s) 39
BglII AGATCT 1 cut(s) 35
BisI GCNGC 1 cut(s) 217
BlsI GCNGC 1 cut(s) 218
Bme18I GGWCC 1 cut(s) 158
BmgT120I GGNCC 1 cut(s) 158
BmiI GGNNCC 1 cut(s) 159
BmsI GCATC 2 cut(s) 35, 168
Bsa29I ATCGAT 2 cut(s) 327, 351
BsaWI WCCGGW 1 cut(s) 185
Bse3DI GCAATG 1 cut(s) 103
BseCI ATCGAT 2 cut(s) 327, 351
BseGI GGATG 1 cut(s) 325
BseMI GCAATG 1 cut(s) 103
BseMII CTCAG 2 cut(s) 284, 330
BseXI GCAGC 1 cut(s) 203
Bsh1285I CGRYCG 1 cut(s) 98
BshVI ATCGAT 2 cut(s) 327, 351
BsiEI CGRYCG 1 cut(s) 98
BsiSI CCGG 1 cut(s) 186
BsmAI GTCTC 1 cut(s) 94
Bsp143I GATC 3 cut(s) 35, 82, 312
BspCNI CTCAG 2 cut(s) 283, 331
BspDI ATCGAT 2 cut(s) 327, 351
BspLI GGNNCC 1 cut(s) 159
BspMAI CTGCAG 1 cut(s) 59
BspMI ACCTGC 1 cut(s) 39
BspPI GGATC 1 cut(s) 320
BspQI GCTCTTC 1 cut(s) 78
BsrDI GCAATG 1 cut(s) 103
BssMI GATC 3 cut(s) 35, 82, 312
BssSI CACGAG 1 cut(s) 260
Bst2BI CACGAG 1 cut(s) 260
Bst4CI ACNGT 3 cut(s) 19, 137, 199
Bst6I CTCTTC 2 cut(s) 78, 134
BstAPI GCANNNNNTGC 1 cut(s) 54
BstDEI CTNAG 2 cut(s) 270, 339
BstF5I GGATG 1 cut(s) 325
BstHHI GCGC 1 cut(s) 259
BstKTI GATC 3 cut(s) 38, 85, 315
BstMAI GTCTC 1 cut(s) 94
BstMBI GATC 3 cut(s) 35, 82, 312
BstMCI CGRYCG 1 cut(s) 98
BstMWI GCNNNNNNNGC 1 cut(s) 54
BstSFI CTRYAG 1 cut(s) 55
BstV1I GCAGC 1 cut(s) 203
BstX2I RGATCY 1 cut(s) 35
BstYI RGATCY 1 cut(s) 35
Bsu15I ATCGAT 2 cut(s) 327, 351
BsuTUI ATCGAT 2 cut(s) 327, 351
BtsCI GGATG 1 cut(s) 325
BveI ACCTGC 1 cut(s) 39
CaiI CAGNNNCTG 1 cut(s) 54
CfoI GCGC 1 cut(s) 259
Cfr13I GGNCC 1 cut(s) 158
ClaI ATCGAT 2 cut(s) 327, 351
CviAII CATG 1 cut(s) 359
CviJI RGCY 5 cut(s) 25, 122, 203, 240, 269
CviKI_1 RGCY 5 cut(s) 25, 122, 203, 240, 269
DdeI CTNAG 2 cut(s) 270, 339
DpnI GATC 3 cut(s) 37, 84, 314
DpnII GATC 3 cut(s) 35, 82, 312
Eam1104I CTCTTC 2 cut(s) 78, 134
EarI CTCTTC 2 cut(s) 78, 134
Eco47I GGWCC 1 cut(s) 158
EcoO109I RGGNCCY 1 cut(s) 158
FaeI CATG 1 cut(s) 362
FaiI YATR 6 cut(s) 149, 155, 191, 279, 348, 360
FatI CATG 1 cut(s) 358
Fnu4HI GCNGC 1 cut(s) 217
FokI GGATG 1 cut(s) 332
Fsp4HI GCNGC 1 cut(s) 217
FspBI CTAG 1 cut(s) 164
GlaI GCGC 1 cut(s) 258
GluI GCNGC 1 cut(s) 217
HapII CCGG 1 cut(s) 186
HhaI GCGC 1 cut(s) 259
Hin1II CATG 1 cut(s) 362
Hin6I GCGC 1 cut(s) 257
HinP1I GCGC 1 cut(s) 257
HinfI GANTC 2 cut(s) 251, 383
HpaII CCGG 1 cut(s) 186
HphI GGTGA 1 cut(s) 154
Hpy166II GTNNAC 2 cut(s) 145, 227
Hpy188I TCNGA 1 cut(s) 273
Hpy188III TCNNGA 3 cut(s) 77, 164, 299
Hpy8I GTNNAC 2 cut(s) 145, 227
HpyAV CCTTC 3 cut(s) 23, 278, 303
HpyCH4III ACNGT 3 cut(s) 19, 137, 199
HpyCH4V TGCA 3 cut(s) 48, 57, 193
HpyF10VI GCNNNNNNNGC 1 cut(s) 54
HpyF3I CTNAG 2 cut(s) 270, 339
Hsp92II CATG 1 cut(s) 362
HspAI GCGC 1 cut(s) 257
Kzo9I GATC 3 cut(s) 35, 82, 312
LguI GCTCTTC 1 cut(s) 78
LmnI GCTCC 1 cut(s) 22
LpnPI CCDG 4 cut(s) 34, 199, 226, 284
Lsp1109I GCAGC 1 cut(s) 203
LweI GCATC 2 cut(s) 35, 168
MaeI CTAG 1 cut(s) 164
MalI GATC 3 cut(s) 37, 84, 314
MboI GATC 3 cut(s) 35, 82, 312
MboII GAAGA 3 cut(s) 45, 65, 121
MflI RGATCY 1 cut(s) 35
MluCI AATT 1 cut(s) 290
MnlI CCTC 6 cut(s) 107, 137, 160, 171, 299, 334
MseI TTAA 1 cut(s) 388
MslI CAYNNNNRTG 1 cut(s) 152
MspI CCGG 1 cut(s) 186
MwoI GCNNNNNNNGC 1 cut(s) 54
NdeII GATC 3 cut(s) 35, 82, 312
NlaIII CATG 1 cut(s) 362
NlaIV GGNNCC 1 cut(s) 159
PciSI GCTCTTC 1 cut(s) 78
PcsI WCGNNNNNNNCGW 1 cut(s) 75
PfeI GAWTC 2 cut(s) 251, 383
PkrI GCNGC 1 cut(s) 218
PpuMI RGGWCCY 1 cut(s) 158
Psp5II RGGWCCY 1 cut(s) 158
PspN4I GGNNCC 1 cut(s) 159
PspPI GGNCC 1 cut(s) 158
PspPPI RGGWCCY 1 cut(s) 158
PstI CTGCAG 1 cut(s) 59
PstNI CAGNNNCTG 1 cut(s) 54
PsuI RGATCY 1 cut(s) 35
RseI CAYNNNNRTG 1 cut(s) 152
SapI GCTCTTC 1 cut(s) 78
SaqAI TTAA 1 cut(s) 388
SatI GCNGC 1 cut(s) 217
Sau3AI GATC 3 cut(s) 35, 82, 312
Sau96I GGNCC 1 cut(s) 158
SetI ASST 6 cut(s) 27, 53, 129, 205, 271, 345
SfaNI GCATC 2 cut(s) 35, 168
SfcI CTRYAG 1 cut(s) 55
SinI GGWCC 1 cut(s) 158
SmiMI CAYNNNNRTG 1 cut(s) 152
Sse9I AATT 1 cut(s) 290
SspMI CTAG 1 cut(s) 164
TaaI ACNGT 3 cut(s) 19, 137, 199
TaqI TCGA 2 cut(s) 327, 351
TaqII GACCGA 1 cut(s) 84
TasI AATT 1 cut(s) 290
TfiI GAWTC 2 cut(s) 251, 383
Tru1I TTAA 1 cut(s) 388
Tru9I TTAA 1 cut(s) 388
TseI GCWGC 1 cut(s) 216
TspDTI ATGAA 2 cut(s) 92, 336
VpaK11BI GGWCC 1 cut(s) 158
XapI RAATTY 1 cut(s) 290
XbaI TCTAGA 1 cut(s) 163
XspI CTAG 1 cut(s) 164
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.