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[185666_at]

Description Y48A6B.11 /REP_DB=WormBase Gene ID /WP=CE24379 /TR=Q9TVY5 /GB=CAA19535.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 79      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_total > 79      4grp_total > 51      6grp_high1_sub > Cu      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 108.2
(-1.7)
P 		181
(3)
P 		153.2
(1.2)
P 		87.7
(-3)
P 		93
B 108.6
(-1.9)
P 		211.7
(3)
P 		107.4
(-1.9)
P 		85
(-3)
P 		127
C 131.1
(-0.2)
P 		175.5
(3)
P 		157.8
(1.7)
P 		92.1
(-3)
P 		83
avr 116
(-1.4) 		189.4
(3) 		139.5
(0) 		88.3
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 211
1 2 3 4 5 6 range
A 70.6
(-3)
P 		83.1
(-2.5)
P 		75
(-2.8)
M 		75.1
(-2.8)
P 		148.4
(0.1)
P 		223.6
(3)
P 		153
B 146.6
(-1.1)
P 		107.1
(-2.4)
P 		115.1
(-2.1)
P 		87.4
(-3)
P 		158
(-0.7)
P 		275.3
(3)
P 		188
C 150.9
(0.6)
P 		135.9
(-0)
P 		63.9
(-3)
P 		111.4
(-1.1)
P 		186.9
(2)
P 		210.3
(3)
P 		146
avr 122.7
(-1.5) 		108.7
(-2.1) 		84.7
(-3) 		91.3
(-2.7) 		164.4
(0.2) 		236.4
(3) 		152
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 39.4
(2.9)
P 		39.3
(2.8)
P 		40
(3)
P 		12.8
(-3)
P 		27
B 34.6
(-0.1)
P 		52.3
(3)
P 		24.9
(-1.8)
P 		18.1
(-3)
P 		34
C 43.4
(1.2)
P 		50.5
(2.3)
P 		55
(3)
P 		15.5
(-3)
P 		40
avr 39.1
(1.4) 		47.4
(3) 		40
(1.6) 		15.5
(-3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 13
(-3)
P 		29.6
(-0.6)
P 		16.3
(-2.5)
M 		19
(-2.1)
P 		44.8
(1.6)
P 		54.4
(3)
P 		41
B 51
(-0.9)
P 		35.7
(-2.1)
P 		27.9
(-2.6)
P 		23.1
(-3)
P 		64.2
(0.1)
P 		102.7
(3)
P 		80
C 55.9
(1.4)
P 		41.5
(-0.2)
P 		16.3
(-3)
P 		22.4
(-2.3)
P 		60.5
(1.9)
P 		70.4
(3)
P 		54
avr 40
(-0.9) 		35.6
(-1.3) 		20.2
(-3) 		21.5
(-2.9) 		56.5
(0.9) 		75.8
(3) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185666_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6118
Sequence Type Exemplar sequence
Representative Public ID Y48A6B.11 NCBI
Target Description Y48A6B.11 /REP_DB=WormBase Gene ID /WP=CE24379 /TR=Q9TVY5 /GB=CAA19535.2 /SUBMIT=HINXTON /CHR=3 /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_001027715(11), NM_001027716(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027715 NCBI Caenorhabditis elegans Y48A6B.11a (Y48A6B.11) mRNA, complete cds. 11/11 None
NM_001027716 NCBI Caenorhabditis elegans Y48A6B.11b (Y48A6B.11) mRNA, complete cds. 11/11 None
SNAP00000027407 ENSEMBL cdna:SNAP chromosome:CEL140:III:11065042:11068529:1 11/11 None
GENEFINDER00000027418 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11065377:11068529:1 11/11 None
Y48A6B.11a ENSEMBL cdna:known chromosome:CEL140:III:11063406:11068630:1 gene:Y48A6B.11 11/11 A 
Y48A6B.11b ENSEMBL cdna:known chromosome:CEL140:III:11063433:11068529:1 gene:Y48A6B.11 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
chrIII:11063428-11068525(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y48A6B.11
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04948 Hypothetical protein Y48A6B.11a [Caenorhabditis elegans] emb|CAA19535.2| Hypothetical protein Y48A6B.11a [Caenorhabditis elegans] ref|NP_001022886.1| Y48A6B.11a [Caenorhabditis elegans] 0.0
blast CAE11308 Hypothetical protein Y48A6B.11b [Caenorhabditis elegans] emb|CAE11312.1| Hypothetical protein Y48A6B.11b [Caenorhabditis elegans] ref|NP_001022887.1| Y48A6B.11b [Caenorhabditis elegans] 0.0
blast CAE67617 Hypothetical protein CBG13166 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.C-terminal fragment of elongation factor SelB All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; C-terminal fragment of elongation factor SelB 2.40000009536743
scop a.4.5.C-terminal fragment of elongation factor SelB All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; C-terminal fragment of elongation factor SelB 3.29999995231628
scop a.4.5.C-terminal fragment of elongation factor SelB All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; C-terminal fragment of elongation factor SelB 4.0
Sequence
Target Sequence 
>C. ELEGANS:185666_AT
gaaacgacgtttgctggaatggatatggaggaatattgtcagcgagagttcttgaaagag
attagcccaataatggttcaaaaggcaattgagcttcaggacgagctccgcggagtcgac
tggcttacagcgcaagatgtttggcagccaccctcatttaaagatgttcaaatggagttc
gacgacaatttcgagtatttcgactcgttttccatacttatttggagtgcggtggtggat
ttaatcaataaaaactacctgaaatttggccgaaaaatgactgaaaatgaggaaatcgcg
tttgaagcggaggcgttgaaaatgctccaaaccgagcacggacccgaatcgagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACGACGTTTGCTGGAATGGATA 327 357 2230 Antisense
AAGGCAATTGAGCTTCAGGACGAGC 284 161 2311 Antisense
AGTCGACTGGCTTACAGCGCAAGAT 373 59 2343 Antisense
CAGCGCAAGATGTTTGGCAGCCACC 556 203 2357 Antisense
GGCAGCCACCCTCATTTAAAGATGT 302 523 2372 Antisense
AGATGTTCAAATGGAGTTCGACGAC 79 67 2391 Antisense
ATTTCGACTCGTTTTCCATACTTAT 531 15 2426 Antisense
GGAGTGCGGTGGTGGATTTAATCAA 414 515 2453 Antisense
AAATCGCGTTTGAAGCGGAGGCGTT 391 119 2522 Antisense
AAATGCTCCAAACCGAGCACGGACC 408 119 2549 Antisense
ACCGAGCACGGACCCGAATCGAGAA 335 87 2560 Antisense
Sequence Source Affymetrix Proprietary Database