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[194168_s_at]

Description AV180445_rc /REP_DB=TREMBL Accession /GB=AV180445 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk607e1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 57      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 90      6grp_total > 58      4grp_total > 38      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 148.7
(2.7)
P 		124.7
(-1)
P 		111.6
(-3)
P 		150.6
(3)
P 		39
B 135.8
(3)
P 		128.3
(1.8)
P 		116.7
(-0.1)
P 		99.2
(-3)
P 		37
C 153
(3)
P 		95.6
(-3)
P 		95.7
(-3)
P 		106.9
(-1.8)
P 		57
avr 145.8
(3) 		116.2
(-1.7) 		108
(-3) 		118.9
(-1.3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 164
(-0.1)
P 		145
(-1.1)
P 		121
(-2.4)
P 		109.5
(-3)
P 		128.7
(-2)
P 		220.4
(3)
P 		111
B 173.2
(0.2)
P 		164
(-0.6)
P 		134.1
(-3)
P 		137.5
(-2.7)
P 		151.9
(-1.5)
P 		207.7
(3)
P 		74
C 160
(-0.4)
P 		157.3
(-0.5)
P 		166.1
(0.1)
P 		123.1
(-3)
P 		144.2
(-1.5)
P 		206.8
(3)
P 		84
avr 165.7
(-0.1) 		155.4
(-0.8) 		140.4
(-1.8) 		123.4
(-3) 		141.6
(-1.8) 		211.6
(3) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 54.2
(3)
P 		27.1
(-2)
P 		29.2
(-1.7)
P 		22
(-3)
P 		32
B 43.3
(3)
P 		31.7
(-0.1)
P 		27
(-1.4)
P 		21.1
(-3)
P 		22
C 50.7
(3)
P 		27.5
(-1.3)
P 		33.4
(-0.2)
P 		18
(-3)
P 		33
avr 49.4
(3) 		28.8
(-1.3) 		29.9
(-1) 		20.4
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 30.2
(-2.2)
P 		51.6
(2.5)
P 		26.4
(-3)
P 		27.8
(-2.7)
P 		38.8
(-0.3)
P 		53.7
(3)
P 		27
B 60.3
(0.7)
P 		54.6
(-0.1)
P 		32.6
(-3)
P 		36.4
(-2.5)
P 		61.7
(0.9)
P 		77.5
(3)
P 		45
C 59.3
(1.7)
P 		48
(0.1)
P 		42.3
(-0.6)
P 		24.7
(-3)
P 		46.6
(-0)
P 		69.2
(3)
P 		45
avr 49.9
(0.3) 		51.4
(0.5) 		33.8
(-2.3) 		29.6
(-3) 		49
(0.1) 		66.8
(3) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194168_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27624
Sequence Type Exemplar sequence
Representative Public ID AV180445 NCBI
Target Description AV180445_rc /REP_DB=TREMBL Accession /GB=AV180445 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk607e1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_060511(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060511 NCBI Caenorhabditis elegans F56G4.4 (F56G4.4) mRNA, complete cds. 11/11 A 
GENEFINDER00000039535 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11382748:11388189:1 11/11 None
SNAP00000039532 ENSEMBL cdna:SNAP chromosome:CEL140:I:11383055:11388189:1 11/11 None
F56G4.4 ENSEMBL cdna:known chromosome:CEL140:I:11382748:11388241:1 gene:F56G4.4 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:11387277-11388129(+) 93.02 96.83
Public Domain and Genome References
Gene Title
Ensembl F56G4.4
Entrez Gene 173027 Entrez gene
SwissProt Q9XUY1 EMBL-EBI
WormBase CE18758 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04486 Hypothetical protein F56G4.4 [Caenorhabditis elegans] ref|NP_492912.1| F56G4.4 [Caenorhabditis elegans] 0.0
blast CAB04486 Hypothetical protein F56G4.4 [Caenorhabditis elegans] ref|NP_492912.1| F56G4.4 [Caenorhabditis elegans] 1.0E-180
blast CAE63558 Hypothetical protein CBG08044 [Caenorhabditis briggsae] 1.0E-156
blast CAE63558 Hypothetical protein CBG08044 [Caenorhabditis briggsae] 1.0E-131
blast XP_782450 PREDICTED: similar to CG4291-PA [Strongylocentrotus purpuratus] 3.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR003604 EMBL-EBI Zn-finger, U1-like 4.3E-5
Sequence
Target Sequence 
>C. ELEGANS:194168_S_AT
aaaaccatcaattccaacaacacctggagcaccatttggagcatggcaacgtgtcgnnnn
nngtgnnnnnncgacggaaatattcgaatttccactaactgcacgattccgtgaagaagn
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaggaggaccgaaatttgaatttgg
agnnnnnnctgccagtgttatgacgnnnnnggtaaaaggaccgatcgaattcaag

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAACCATCAATTCCAACAACACCT 673 131 42 Antisense
AACCATCAATTCCAACAACACCTGG 393 147 44 Antisense
AATTCCAACAACACCTGGAGCACCA 399 173 51 Antisense
CCAACAACACCTGGAGCACCATTTG 87 277 55 Antisense
CAACACCTGGAGCACCATTTGGAGC 307 187 59 Antisense
CACCTGGAGCACCATTTGGAGCATG 342 201 62 Antisense
GGAGCACCATTTGGAGCATGGCAAC 175 521 67 Antisense
CCATTTGGAGCATGGCAACGTGTCG 76 271 73 Antisense
TCCACTAACTGCACGATTCCGTGAA 238 587 132 Antisense
CTAACTGCACGATTCCGTGAAGAAG 121 227 136 Antisense
GGTAAAAGGACCGATCGAATTCAAG 225 497 252 Antisense
Sequence Source Affymetrix Proprietary Database