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[188202_s_at]

Description T12F5.4 /REP_DB=WormBase Gene ID /WP=CE13601 /GEN=lin-59 /TR=O44757 /GB=AAB96746.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 54      4grp_high_8_8 > 10      6grp_highest_nonorm > 80      6grp_total > 16      4grp_total > 22      6grp_highest_sub > De      6grp_cgc > 23      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 178
1 2 3 4 range
A 269.6
(3)
P 		91.4
(-3)
P 		118
(-2.1)
P 		264.4
(2.8)
P 		178
B 245.9
(3)
P 		166.9
(-0.9)
P 		124.7
(-3)
P 		224.1
(1.9)
P 		121
C 218.3
(0.3)
P 		196.6
(-1.6)
P 		181.3
(-3)
P 		248.9
(3)
P 		68
avr 244.6
(2.9) 		151.6
(-2.4) 		141.3
(-3) 		245.8
(3) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 221
1 2 3 4 5 6 range
A 260.8
(3)
P 		120.6
(-1.7)
P 		147.6
(-0.8)
P 		81.6
(-3)
P 		138.4
(-1.1)
P 		127.8
(-1.5)
P 		179
B 302.2
(3)
P 		230.6
(0.5)
P 		172.3
(-1.4)
P 		132
(-2.8)
P 		129.2
(-2.9)
P 		126.9
(-3)
P 		175
C 248.6
(1.8)
P 		284.6
(3)
P 		126.1
(-2.1)
P 		211
(0.6)
P 		97.7
(-3)
P 		110.7
(-2.6)
P 		187
avr 270.5
(3) 		211.9
(0.6) 		148.7
(-1.9) 		141.5
(-2.2) 		121.8
(-3) 		121.8
(-3) 		149
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 98.2
(3)
P 		19.8
(-3)
P 		30.9
(-2.2)
P 		38.7
(-1.6)
P 		78
B 78.4
(3)
P 		41.2
(-1.5)
P 		28.9
(-3)
P 		47.8
(-0.7)
P 		50
C 72.2
(3)
P 		56.5
(-0.1)
P 		63.2
(1.2)
P 		42
(-3)
P 		30
avr 82.9
(3) 		39.2
(-3) 		41
(-2.8) 		42.8
(-2.5) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 48.1
(3)
P 		42.9
(1.9)
P 		32.1
(-0.5)
P 		20.7
(-3)
P 		41.8
(1.6)
P 		31.1
(-0.7)
P 		27
B 105.1
(3)
P 		76.8
(0.6)
P 		41.8
(-2.4)
P 		35
(-3)
P 		52.5
(-1.5)
P 		47.3
(-1.9)
P 		70
C 92.1
(3)
P 		86.8
(2.5)
P 		32.1
(-3)
P 		42.4
(-1.9)
P 		31.6
(-3)
P 		37
(-2.5)
P 		61
avr 81.8
(3) 		68.8
(1.4) 		35.3
(-2.7) 		32.7
(-3) 		42
(-1.9) 		38.5
(-2.3) 		49
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188202_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.320
Sequence Type Exemplar sequence
Representative Public ID T12F5.4 NCBI
Target Description T12F5.4 /REP_DB=WormBase Gene ID /WP=CE13601 /GEN=lin-59 /TR=O44757 /GB=AAB96746.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_058805(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058805 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-59) (lin-59) mRNA, complete cds. 11/11 A 
SNAP00000015200 ENSEMBL cdna:SNAP chromosome:CEL140:I:3713766:3719109:-1 11/11 None
GENEFINDER00000015212 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3713766:3721062:-1 11/11 None
T12F5.4 ENSEMBL cdna:known chromosome:CEL140:I:3713125:3721159:-1 gene:T12F5.4 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:3713765-3721062(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol lin-59
Ensembl T12F5.4
Entrez Gene 266825 Entrez gene
SwissProt O44757 EMBL-EBI
WormBase CE13601 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB96746 Abnormal cell lineage protein 59 [Caenorhabditis elegans] ref|NP_491206.1| abnormal cell LINeage family member (lin-59) [Caenorhabditis elegans] gb|AAD49324.1| trithorax-related protein LIN-59 [Caenorhabditis elegans] sp|O44757|LIN59_CAEEL Protein lin-59 (Abnormal cell lineage protein 59) 0.0
blast CAE66678 Hypothetical protein CBG12017 [Caenorhabditis briggsae] 0.0
blast CAG10822 unnamed protein product [Tetraodon nigroviridis] 7.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 3.1E-16
Pfam IPR001214 EMBL-EBI Nuclear protein SET 3.4E-31
Pfam IPR001025 EMBL-EBI Bromo adjacent region 1.8E-36
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 3.1E-16
Pfam IPR001214 EMBL-EBI Nuclear protein SET 3.4E-31
Pfam IPR001025 EMBL-EBI Bromo adjacent region 1.8E-36
Sequence
Target Sequence 
>C. ELEGANS:188202_S_AT
caacatctccattgcccattgagaaagtggatcggaagaatgcaagaatattccgtgtcg
aaagattattcgtttgtcctggaaacaatcgcttcgttttcggatccttctacgcgtggc
ctcatgaaacttatgcagatgctggacgagtattcagtaagaaggaagtgtttgcaactc
catattatgagactcttccactcgatgaggtaatcggtagatgtctcgtattggacactg
caacatggtgcaagggaagaccaaaagttccaaagttcaaagaagacgacgtgttccttt
gtgagatgcaaattggaaagactcaacgagtgtttgaaaaggttccaccgaagaacagat
atccaatcaacacgaattcatatgttttcacagagtttacgcatccaaagaaggttgtcc
gagattttagaccgtacgatccatcgaatccatctccaaaaccgccaaaaacctcatcca
ttccatcgacatcctccatcgatcctccacaatcatcgtccgatggtcttccagaagtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACATCTCCATTGCCCATTGAGAA 304 189 3335 Antisense
GAAAGATTATTCGTTTGTCCTGGAA 689 359 3394 Antisense
GAAACAATCGCTTCGTTTTCGGATC 594 355 3416 Antisense
CTACGCGTGGCCTCATGAAACTTAT 461 223 3444 Antisense
TGAGACTCTTCCACTCGATGAGGTA 74 567 3522 Antisense
GATGTCTCGTATTGGACACTGCAAC 580 409 3554 Antisense
GACGACGTGTTCCTTTGTGAGATGC 676 379 3619 Antisense
GTTTTCACAGAGTTTACGCATCCAA 342 449 3718 Antisense
TCCATCGAATCCATCTCCAAAACCG 281 591 3774 Antisense
TCCTCCACAATCATCGTCCGATGGT 251 593 3837 Antisense
ATCGTCCGATGGTCTTCCAGAAGTG 585 35 3849 Antisense
Sequence Source Affymetrix Proprietary Database