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[173719_s_at]

Description AV194495 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y49F6B.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV194495 /WB_GENE_ID=Y49F6B.9 /WP=CE25342 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk630b2 : 5prime end, single read.
Cluster 6grp_total > 88      4grp_total > 16      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 48.5
(-3)
A 		57.3
(-2.3)
A 		129.1
(3)
A 		109.3
(1.5)
A 		81
B 71.1
(-3)
A 		100.2
(-1.7)
A 		114.8
(-1.1)
A 		206.9
(3)
P 		136
C 56.7
(-3)
A 		80
(-1.8)
A 		68.2
(-2.4)
A 		173.3
(3)
P 		117
avr 58.8
(-3) 		79.2
(-1.8) 		104
(-0.4) 		163.2
(3) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 377
1 2 3 4 5 6 range
A 77.9
(-2.3)
A 		62.1
(-2.6)
A 		52.6
(-2.8)
A 		41.2
(-3)
A 		243.4
(0.7)
P 		366.7
(3)
P 		326
B 48.7
(-2.9)
A 		41.3
(-3)
A 		100.3
(-2.1)
A 		85.5
(-2.3)
M 		311.3
(1.3)
P 		417.8
(3)
P 		377
C 46.4
(-3)
A 		49.6
(-2.9)
A 		76.8
(-2.5)
A 		112.8
(-1.8)
A 		218.4
(0.1)
P 		381.2
(3)
P 		335
avr 57.7
(-2.9) 		51
(-3) 		76.6
(-2.5) 		79.8
(-2.5) 		257.7
(0.7) 		388.6
(3) 		338
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 17.7
(-1.5)
A 		12.4
(-3)
A 		33.8
(3)
A 		16
(-2)
A 		21
B 22.7
(-3)
A 		24.7
(-2.4)
A 		26.6
(-1.9)
A 		44.1
(3)
P 		21
C 18.8
(-3)
A 		23
(-0.6)
A 		23.8
(-0.1)
A 		29.2
(3)
P 		10
avr 19.7
(-3) 		20
(-2.8) 		28.1
(2) 		29.8
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 14.4
(-2.7)
A 		22.1
(-2.1)
A 		11.5
(-2.9)
A 		10.4
(-3)
A 		73.5
(1.8)
P 		89.3
(3)
P 		79
B 16.9
(-2.9)
A 		13.7
(-3)
A 		24.4
(-2.5)
A 		22.7
(-2.6)
M 		126.5
(1.8)
P 		155.8
(3)
P 		142
C 17.2
(-2.9)
A 		15.1
(-3)
A 		19.5
(-2.8)
A 		22.7
(-2.6)
A 		70.7
(-0)
P 		127.6
(3)
P 		113
avr 16.2
(-3) 		17
(-3) 		18.5
(-2.9) 		18.6
(-2.9) 		90.2
(1.1) 		124.2
(3) 		108
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173719_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23611
Sequence Type Exemplar sequence
Representative Public ID AV194495 NCBI
Target Description AV194495 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y49F6B.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV194495 /WB_GENE_ID=Y49F6B.9 /WP=CE25342 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk630b2 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_062160(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062160 NCBI Caenorhabditis elegans Y49F6B.9 (Y49F6B.9) mRNA, complete cds. 11/11 None
SNAP00000021100 ENSEMBL cdna:SNAP chromosome:CEL140:II:3494042:3499375:-1 11/11 None
GENEFINDER00000021106 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3494042:3499375:-1 11/11 None
Y49F6B.9 ENSEMBL cdna:known chromosome:CEL140:II:3493934:3499388:-1 gene:Y49F6B.9 11/11 None
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
chrII:3493943-3499375(-) 95.83 100.0
Public Domain and Genome References
Gene Title
Ensembl Y49F6B.9
Entrez Gene 173694 Entrez gene
SwissProt Q9N4U3 EMBL-EBI
WormBase CE25342 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_494561 Y49F6B.9 [Caenorhabditis elegans] gb|AAF60735.1| Hypothetical protein Y49F6B.9 [Caenorhabditis elegans] 0.0
blast NP_494561 Y49F6B.9 [Caenorhabditis elegans] gb|AAF60735.1| Hypothetical protein Y49F6B.9 [Caenorhabditis elegans] 1.0E-162
blast NP_494561 Y49F6B.9 [Caenorhabditis elegans] gb|AAF60735.1| Hypothetical protein Y49F6B.9 [Caenorhabditis elegans] 1.0E-112
blast T25555 hypothetical protein C17H11.6 - Caenorhabditis elegans 9.0E-84
blast AAK68189 Hypothetical protein C17H11.6a [Caenorhabditis elegans] ref|NP_509383.1| C17H11.6a [Caenorhabditis elegans] 1.0E-83
blast CAE70950 Hypothetical protein CBG17760 [Caenorhabditis briggsae] 3.0E-63
blast T25555 hypothetical protein C17H11.6 - Caenorhabditis elegans 6.0E-63
blast CAE70950 Hypothetical protein CBG17760 [Caenorhabditis briggsae] 8.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR002867 EMBL-EBI Zn-finger, cysteine-rich C6HC 5.2E-21
Pfam IPR002867 EMBL-EBI Zn-finger, cysteine-rich C6HC 5.2E-21
Pfam IPR002867 EMBL-EBI Zn-finger, cysteine-rich C6HC 0.0054
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_494561.1 2 228-250,270-292
Y49F6B.9 2 228-250,270-292
SNAP00000021100 2 220-242,262-284
GENEFINDER00000021106 2 315-337,357-379
Sequence
Target Sequence 
>C. ELEGANS:173719_S_AT
attgccgcgacggcagtgatctccgtaccattaatcaccggaatgattccattttcggtg
ggaaaacgggtttacaagcggctgaaaaatcaatcgaaggcgaaaagagtcatctcgacg
gccgccgccgtcaccacttcggccatcgtttcgccggccattgccggagttgctgttgca
atcggcgttccatttgcacttggctacacgtacatcatggtaccgaaggcgttagttcac
gatgtcgtcgactatgttcaaaagaagaagcgacgagaggttccgattgcagacaccttc
cacgtggacggttaccatggagcaacaatgtcattggctccgccgccggagccagagcct
gagcaccgaaatgcggatggctcggcacccggaccatcatcagtgacgtcatcagactat
tcggaggatttctcgtcgtcgtcgggcgatgatttta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGCCGCGACGGCAGTGATCTCCG 666 5 701 Antisense
GATCTCCGTACCATTAATCACCGGA 524 413 718 Antisense
CGAAAAGAGTCATCTCGACGGCCGC 262 253 801 Antisense
TGCAATCGGCGTTCCATTTGCACTT 119 577 877 Antisense
ATTTGCACTTGGCTACACGTACATC 255 17 892 Antisense
GAAGGCGTTAGTTCACGATGTCGTC 583 331 925 Antisense
GCGACGAGAGGTTCCGATTGCAGAC 516 289 970 Antisense
CCTTCCACGTGGACGGTTACCATGG 206 265 996 Antisense
CCGAAATGCGGATGGCTCGGCACCC 534 251 1066 Antisense
ATTCGGAGGATTTCTCGTCGTCGTC 182 11 1119 Antisense
TCGTCGTCGTCGGGCGATGATTTTA 410 605 1133 Antisense
Sequence Source Affymetrix Proprietary Database