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[174383_s_at]

Description C34499_rc /REP_DB=TREMBL Accession /GB=C34499 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk402f8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 99      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 83      6grp_total > 99      4grp_total > 01      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 518
1 2 3 4 range
A 312.2
(-2.9)
P 		300.6
(-3)
P 		330.9
(-2.6)
P 		818.1
(3)
P 		518
B 378.3
(-2.4)
P 		334.3
(-3)
P 		410.4
(-1.9)
P 		746.3
(3)
P 		412
C 432.8
(-2)
P 		359.1
(-3)
P 		363.8
(-2.9)
P 		809
(3)
P 		450
avr 374.4
(-2.4) 		331.3
(-3) 		368.4
(-2.5) 		791.1
(3) 		460

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 332
1 2 3 4 5 6 range
A 328.2
(-3)
P 		435.3
(0.8)
P 		459.9
(1.7)
P 		447.7
(1.3)
P 		460.3
(1.7)
P 		495.4
(3)
P 		167
B 398.3
(-0.4)
P 		320.5
(-3)
P 		464
(1.8)
P 		427.8
(0.6)
P 		499.1
(3)
P 		469.9
(2)
P 		179
C 532.5
(0.8)
P 		332
(-3)
P 		361.7
(-2.4)
P 		384.8
(-2)
P 		652.3
(3)
P 		516
(0.4)
P 		320
avr 419.7
(-1) 		362.6
(-3) 		428.5
(-0.7) 		420.1
(-1) 		537.2
(3) 		493.8
(1.5) 		175
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 113.7
(2.3)
P 		65.3
(-3)
P 		86.5
(-0.7)
P 		119.8
(3)
P 		55
B 120.6
(-0)
P 		82.6
(-3)
P 		95.1
(-2)
P 		159
(3)
P 		76
C 143.3
(3)
P 		103.3
(-3)
P 		126.8
(0.5)
P 		136.4
(2)
P 		40
avr 125.9
(1.6) 		83.7
(-3) 		102.8
(-0.9) 		138.4
(3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 151
1 2 3 4 5 6 range
A 60.5
(-3)
P 		154.8
(3)
P 		100.2
(-0.5)
P 		113.5
(0.4)
P 		138.9
(2)
P 		120.6
(0.8)
P 		94
B 138.6
(-1)
P 		106.7
(-3)
P 		112.7
(-2.6)
P 		113.3
(-2.6)
P 		202.8
(3)
P 		175.2
(1.3)
P 		96
C 197.4
(2.4)
P 		101.3
(-1.9)
P 		92.1
(-2.3)
P 		77.4
(-3)
P 		211.1
(3)
P 		172.7
(1.3)
P 		134
avr 132.2
(-0.8) 		120.9
(-1.6) 		101.7
(-3) 		101.4
(-3) 		184.3
(3) 		156.2
(1) 		83
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174383_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20448
Sequence Type Exemplar sequence
Representative Public ID C34499 NCBI
Target Description C34499_rc /REP_DB=TREMBL Accession /GB=C34499 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk402f8 : 3prime 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_058270(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058270 NCBI Caenorhabditis elegans Y48G1C.9 (Y48G1C.9) mRNA, complete cds. 11/11 None
SNAP00000011480 ENSEMBL cdna:SNAP chromosome:CEL140:I:86784:92648:1 11/11 None
GENEFINDER00000011495 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:91379:92648:1 11/11 None
Y48G1C.9 ENSEMBL cdna:known chromosome:CEL140:I:91379:92654:1 gene:Y48G1C.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
chrI:91434-92644(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y48G1C.9
Entrez Gene 3565103 Entrez gene
SwissProt Q9BL76 EMBL-EBI
WormBase CE38571 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_871895 Y48G1C.11 [Caenorhabditis elegans] gb|AAN60505.1| Hypothetical protein Y48G1C.11 [Caenorhabditis elegans] 0.0
blast CAE60319 Hypothetical protein CBG03910 [Caenorhabditis briggsae] 1.0E-116
blast NP_490671 Y48G1C.9 [Caenorhabditis elegans] gb|AAK29897.2| Hypothetical protein Y48G1C.9 [Caenorhabditis elegans] 1.0E-54
blast NP_490671 Y48G1C.9 [Caenorhabditis elegans] gb|AAK29897.2| Hypothetical protein Y48G1C.9 [Caenorhabditis elegans] 2.0E-53
blast NP_490671 Y48G1C.9 [Caenorhabditis elegans] gb|AAK29897.2| Hypothetical protein Y48G1C.9 [Caenorhabditis elegans] 4.0E-52
blast CAE60318 Hypothetical protein CBG03909 [Caenorhabditis briggsae] 2.0E-32
blast CAE60318 Hypothetical protein CBG03909 [Caenorhabditis briggsae] 5.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR001163 EMBL-EBI Small nuclear ribonucleoprotein (Sm protein) 1.4E-7
Pfam IPR001163 EMBL-EBI Small nuclear ribonucleoprotein (Sm protein) 1.4E-7
Pfam IPR001163 EMBL-EBI Small nuclear ribonucleoprotein (Sm protein) 5.1E-4
Pfam IPR001163 EMBL-EBI Small nuclear ribonucleoprotein (Sm protein) 1.4E-7
Sequence
Target Sequence 
>C. ELEGANS:174383_S_AT
gttgaagggacacgagaacgcgaaaaagtcggaagcccatctgaaagtgctggaatacat
tggcaaacgctatgaaattcgaatgaccgacgggcggtacatacgtggcacgatgatcgc
cactgacaaggacgctaatatggttttcaacaaggcagacgagcgatgggacaaagatcc
ac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTGAAGGGACACGAGAACGCGAAA 710 139 19 Antisense
GCGAAAAAGTCGGAAGCCCATCTGA 566 287 38 Antisense
GCCCATCTGAAAGTGCTGGAATACA 103 287 53 Antisense
GCTGGAATACATTGGCAAACGCTAT 662 293 67 Antisense
GAAATTCGAATGACCGACGGGCGGT 308 361 92 Antisense
GACCGACGGGCGGTACATACGTGGC 563 379 103 Antisense
GGGCGGTACATACGTGGCACGATGA 266 487 110 Antisense
GCACGATGATCGCCACTGACAAGGA 268 315 126 Antisense
GATCGCCACTGACAAGGACGCTAAT 441 417 133 Antisense
AGGACGCTAATATGGTTTTCAACAA 265 55 147 Antisense
GACGAGCGATGGGACAAAGATCCAC 506 379 176 Antisense
Sequence Source Affymetrix Proprietary Database