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[174417_s_at]

Description C52543_rc /REP_DB=TREMBL Accession /GB=C52543 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk260c3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 01      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 31      6grp_total > 14      4grp_total > 47      6grp_highest_sub > De      6grp_cgc > 20      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1865
1 2 3 4 range
A 2365.2
(3)
P 		600.7
(-2.7)
P 		500.4
(-3)
P 		760.9
(-2.2)
P 		1865
B 2225.6
(3)
P 		662.8
(-2.6)
P 		564.2
(-3)
P 		910
(-1.8)
P 		1661
C 2005.1
(3)
P 		675.4
(-2.4)
P 		537.5
(-3)
P 		746.1
(-2.1)
P 		1468
avr 2198.6
(3) 		646.3
(-2.6) 		534
(-3) 		805.7
(-2) 		1665

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1123
1 2 3 4 5 6 range
A 1594.5
(3)
P 		1102.3
(0.4)
P 		1055.8
(0.1)
P 		875.6
(-0.8)
P 		572.3
(-2.5)
P 		471.3
(-3)
P 		1123
B 1441.1
(3)
P 		1075.4
(0.6)
P 		896.6
(-0.5)
P 		930.9
(-0.3)
P 		708.3
(-1.7)
P 		507.6
(-3)
P 		934
C 1409.2
(3)
P 		1079.3
(0.5)
P 		1083
(0.5)
P 		866.5
(-1.1)
P 		612.3
(-3)
P 		622.5
(-2.9)
P 		797
avr 1481.6
(3) 		1085.7
(0.5) 		1011.8
(0) 		891
(-0.7) 		631
(-2.4) 		533.8
(-3) 		948
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 750
1 2 3 4 range
A 861.2
(3)
P 		130.4
(-2.8)
P 		130.8
(-2.8)
P 		111.4
(-3)
P 		750
B 709.7
(3)
P 		163.7
(-2.7)
P 		130.7
(-3)
P 		193.9
(-2.3)
P 		579
C 663.7
(3)
P 		194.2
(-2.2)
P 		187.4
(-2.3)
P 		125.8
(-3)
P 		538
avr 744.9
(3) 		162.8
(-2.8) 		149.6
(-2.9) 		143.7
(-3) 		601

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 408
1 2 3 4 5 6 range
A 293.9
(0.9)
P 		392
(3)
P 		229.9
(-0.5)
P 		222.1
(-0.7)
P 		172.7
(-1.7)
P 		114.7
(-3)
P 		277
B 501.4
(3)
P 		358
(0.2)
P 		217.7
(-2.5)
P 		246.6
(-1.9)
P 		287.8
(-1.1)
P 		189.3
(-3)
P 		312
C 522.3
(3)
P 		329.3
(-0.3)
P 		275.7
(-1.3)
P 		174.3
(-3)
P 		198.1
(-2.6)
P 		208.4
(-2.4)
P 		348
avr 439.2
(3) 		359.8
(1.2) 		241.1
(-1.4) 		214.3
(-2) 		219.5
(-1.9) 		170.8
(-3) 		268
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174417_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21175
Sequence Type Exemplar sequence
Representative Public ID C52543 NCBI
Target Description C52543_rc /REP_DB=TREMBL Accession /GB=C52543 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk260c3 : 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_171123(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171123 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-25) (pqn-25) mRNA, complete cds. 11/11 None
SNAP00000008689 ENSEMBL cdna:SNAP chromosome:CEL140:III:5509217:5517060:-1 11/11 None
D1044.3 ENSEMBL cdna:known chromosome:CEL140:III:5509165:5512558:-1 gene:D1044.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_065776 1/11 Cross Hyb Matching Probes A 
SNAP00000008688 1/11 Cross Hyb Matching Probes None
GENEFINDER00000008693 1/11 Cross Hyb Matching Probes None
D1044.7 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5509219-5509499(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-25
Ensembl D1044.3
Entrez Gene 175759 Entrez gene
SwissProt P41951 EMBL-EBI
WormBase CE29743 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL27237 Prion-like-(q/n-rich)-domain-bearing protein protein 25 [Caenorhabditis elegans] ref|NP_741140.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-25) [Caenorhabditis elegans] sp|P41951|PQN25_CAEEL Glutamine/asparagine-rich protein pqn-25 0.0
blast T15881 hypothetical protein D1044.3 - Caenorhabditis elegans 0.0
blast CAE61369 Hypothetical protein CBG05211 [Caenorhabditis briggsae] 0.0
blast AAK68286 Hypothetical protein D1044.8 [Caenorhabditis elegans] 0.0
Protein Families
Method ID Description E-Value
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 2.0E-16
hanks 1.8.1 AGC group; AGC VIII Flowering plant PVPK1 homologs; PVPK1 6.0E-62
Protein Domains
Database ID Description E-Value
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 6.4E-24
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 1.7E-22
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 8.3E-23
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 2.5E-13
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 5.0E-24
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.5E-29
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 9.6E-26
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.1E-26
Pfam IPR000719 EMBL-EBI Protein kinase 1.3E-60
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 6.4E-24
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 1.7E-22
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 8.3E-23
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 2.5E-13
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 5.0E-24
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.5E-29
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 9.6E-26
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.1E-26
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741140.1 1 26-48
D1044.3 1 26-48
Sequence
Target Sequence 
>C. ELEGANS:174417_S_AT
cccaatgccagatcactcaacagtgtcttggaaactcacaatgtatgaattcattctgtc
agtgcccatctggaacaaccaatgtcaataacttctgcacaacatcatcttcttcatcaa
atctgtgctctgctgggcagactgttcaattagacagttccaatcagccaatcaactgtt
tagtttccacgtgtcctaataattcgttctgtcagtattcatcatctggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCAATGCCAGATCACTCAACAGTG 15 259 22 Antisense
ACAGTGTCTTGGAAACTCACAATGT 543 107 41 Antisense
GAATTCATTCTGTCAGTGCCCATCT 395 323 68 Antisense
GTGCCCATCTGGAACAACCAATGTC 322 479 83 Antisense
CAACCAATGTCAATAACTTCTGCAC 89 187 97 Antisense
TTCTGCACAACATCATCTTCTTCAT 144 695 114 Antisense
TCAAATCTGTGCTCTGCTGGGCAGA 288 627 138 Antisense
TAGACAGTTCCAATCAGCCAATCAA 85 653 172 Antisense
CTGTTTAGTTTCCACGTGTCCTAAT 581 235 197 Antisense
GTGTCCTAATAATTCGTTCTGTCAG 443 487 212 Antisense
GTTCTGTCAGTATTCATCATCTGGT 317 443 227 Antisense
Sequence Source Affymetrix Proprietary Database