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[172585_x_at] --- /// --- /// --- /// ---

Description Y105C5A.3 /REP_DB=WormBase Gene ID /WP=CE23185 /TR=Q9N6L3 /GB=CAB54982.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 44      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_total > 0      4grp_total > 33      6grp_total_sub > Hat      6grp_cgc > 55      6grp_high1_sub > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 270
1 2 3 4 range
A 96.7
(-3)
P 		248.2
(2.5)
P 		226.2
(1.7)
P 		261.7
(3)
P 		165
B 123.7
(-1.8)
P 		198.7
(3)
P 		189
(2.4)
P 		105.9
(-3)
P 		93
C 113.8
(-3)
P 		245.5
(0.1)
P 		184.5
(-1.3)
P 		366.3
(3)
P 		253
avr 111.4
(-3) 		230.8
(2.4) 		199.9
(1) 		244.6
(3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 180
1 2 3 4 5 6 range
A 118.6
(-0.9)
P 		155.7
(0.8)
P 		166.2
(1.2)
P 		70.5
(-3)
P 		154.9
(0.7)
P 		206.5
(3)
P 		136
B 114.9
(-3)
P 		187.3
(3)
P 		115.1
(-3)
P 		137.2
(-1.2)
P 		133.6
(-1.5)
P 		159.7
(0.7)
P 		72
C 88.5
(-3)
P 		250.6
(3)
P 		100.3
(-2.5)
A 		87.4
(-3)
P 		131.7
(-1.4)
P 		182
(0.5)
P 		163
avr 107.3
(-2.5) 		197.9
(3) 		127.2
(-1.3) 		98.4
(-3) 		140.1
(-0.5) 		182.7
(2.1) 		100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 35.2
(-3)
P 		53.9
(1.7)
P 		59.1
(3)
P 		38.3
(-2.2)
P 		24
B 39.5
(0.8)
P 		49.1
(3)
P 		43.8
(1.8)
P 		22.6
(-3)
P 		27
C 37.7
(-3)
P 		70.6
(3)
P 		64.3
(1.9)
P 		61.8
(1.4)
P 		33
avr 37.5
(-3) 		57.9
(3) 		55.7
(2.4) 		40.9
(-2) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 21.9
(-2.4)
P 		55.4
(3)
P 		36.2
(-0.1)
P 		17.9
(-3)
P 		46.8
(1.6)
P 		50.3
(2.2)
P 		38
B 40
(-0.9)
P 		62.3
(3)
P 		27.9
(-3)
P 		36.3
(-1.5)
P 		54.3
(1.6)
P 		59.5
(2.5)
P 		34
C 32.8
(-1.5)
P 		76.5
(3)
P 		25.5
(-2.2)
A 		17.6
(-3)
P 		42.6
(-0.5)
P 		60.9
(1.4)
P 		59
avr 31.6
(-1.9) 		64.7
(3) 		29.9
(-2.1) 		23.9
(-3) 		47.9
(0.5) 		56.9
(1.9) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172585_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9534
Sequence Type Exemplar sequence
Representative Public ID Y105C5A.3 NCBI
Target Description Y105C5A.3 /REP_DB=WormBase Gene ID /WP=CE23185 /TR=Q9N6L3 /GB=CAB54982.1 /SUBMIT=HINXTON /CHR=4 /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_070443(9), NM_070471(11), NM_070473(9), NM_070474(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070443 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-91) (pqn-91) mRNA, complete cds. 9/11 A 
NM_070471 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-76) (pqn-76) mRNA, complete cds. 11/11 A 
NM_070473 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-78) (pqn-78) mRNA, complete cds. 9/11 A 
NM_070474 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-79) (pqn-79) mRNA, complete cds. 10/11 A 
SNAP00000030810 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15292164:15293405:1 9/11 None
GENEFINDER00000030889 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15292164:15293405:1 9/11 None
SNAP00000033700 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15579048:15580123:1 11/11 None
SNAP00000033702 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15593922:15594997:-1 9/11 None
SNAP00000033703 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15595532:15596607:1 10/11 None
GENEFINDER00000033779 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15593922:15594997:-1 9/11 None
GENEFINDER00000033780 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15579048:15580123:1 11/11 None
GENEFINDER00000033786 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15595532:15596607:1 10/11 None
Y73F8A.9 ENSEMBL cdna:known chromosome:CEL140:IV:15291869:15293405:1 gene:Y73F8A.9 9/11 A 
Y105C5A.3 ENSEMBL cdna:known chromosome:CEL140:IV:15579048:15580123:1 gene:Y105C5A.3 11/11 A 
Y105C5A.5 ENSEMBL cdna:known chromosome:CEL140:IV:15593922:15594997:-1 gene:Y105C5A.5 9/11 A 
Y105C5A.6 ENSEMBL cdna:known chromosome:CEL140:IV:15595532:15596607:1 gene:Y105C5A.6 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_070442 8/11 Cross Hyb Matching Probes A 
NM_182410 1/11 Cross Hyb Matching Probes A B 
NM_070472 8/11 Cross Hyb Matching Probes A 
NM_073266 2/11 Cross Hyb Matching Probes A 
NM_073267 1/11 Cross Hyb Matching Probes A 
SNAP00000030809 8/11 Cross Hyb Matching Probes None
GENEFINDER00000030899 8/11 Cross Hyb Matching Probes None
SNAP00000033701 8/11 Cross Hyb Matching Probes None
GENEFINDER00000033774 8/11 Cross Hyb Matching Probes None
SNAP00000022368 1/11 Cross Hyb Matching Probes None
GENEFINDER00000022371 1/11 Cross Hyb Matching Probes None
GENEFINDER00000022372 1/11 Cross Hyb Matching Probes None
SNAP00000028834 1/11 Cross Hyb Matching Probes None
SNAP00000028835 1/11 Cross Hyb Matching Probes None
GENEFINDER00000028848 1/11 Cross Hyb Matching Probes None
GENEFINDER00000028852 1/11 Cross Hyb Matching Probes None
Y73F8A.8 8/11 Cross Hyb Matching Probes A 
Y105C5A.4 8/11 Cross Hyb Matching Probes A 
Y5H2A.3 1/11 Cross Hyb Matching Probes A B 
AC3.3 2/11 Cross Hyb Matching Probes A 
AC3.4 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:15579053-15580129(+) 100.0 100.0
chrIV:15595537-15596613(+) 99.9 99.9
chrIV:15590664-15591740(+) 99.31 99.31
chrIV:15593927-15595003(-) 99.5 99.5
Public Domain and Genome References
Gene Title



Gene Symbol pqn-76
pqn-78
pqn-79
pqn-91
Ensembl Y73F8A.9
Y105C5A.3
Y105C5A.5
Y105C5A.6
Entrez Gene 190672 Entrez gene
190869 Entrez gene
190871 Entrez gene
190872 Entrez gene
SwissProt Q9N6L3 EMBL-EBI
Q9NF69 EMBL-EBI
Q9NA38 EMBL-EBI
WormBase CE23185 Wormbase
CE23187 Wormbase
CE23185 Wormbase
CE25601 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CHICKEN:GGAAFFX.5801.2.S1_AT similar to activated in Blocked Unfolded protein response ABU-1, Prion-like Q/N-rich domain protein PQN-1, Prion-like Q/N-rich domain protein (45.9 kD) (abu-1) gga
MG-U74AV2:94227_AT similar to keratin associated protein 9-1 mm
MOUSE430_2:1422209_S_AT similar to keratin associated protein 9-1 mm
MOE430A:1422209_S_AT similar to keratin associated protein 9-1 mm
MOUSE430A_2:1422209_S_AT similar to keratin associated protein 9-1 mm
MOE430B:1430703_AT similar to keratin associated protein 9-1 mm
MOUSE430_2:1430703_AT similar to keratin associated protein 9-1 mm
Protein Similarities
Method ID Description E-Value
blast CAB54985 Hypothetical protein Y105C5A.6 [Caenorhabditis elegans] emb|CAB54982.1| Hypothetical protein Y105C5A.3 [Caenorhabditis elegans] ref|NP_502875.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-79) [Caenorhabditis elegans] ref|NP_502872.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-76) [Caenorhabditis elegans] 2.0E-78
blast CAB54984 Hypothetical protein Y105C5A.5 [Caenorhabditis elegans] ref|NP_502874.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-78) [Caenorhabditis elegans] 7.0E-78
Protein Domains
Database ID Description E-Value
Pfam IPR009475 EMBL-EBI Protein of unknown function DUF1096 6.0E-40
Pfam IPR009475 EMBL-EBI Protein of unknown function DUF1096 1.4E-40
Pfam IPR009475 EMBL-EBI Protein of unknown function DUF1096 1.0E-40
Pfam IPR009475 EMBL-EBI Protein of unknown function DUF1096 2.7E-27
Sequence
Target Sequence 
>C. ELEGANS:172585_X_AT
aatgtcaaccatcatgcatgccagcctgtgaacaatcctgtgttgctccagctccacaag
tcatcagtcttaacttggaggtagttccacagtgtcaacaacagtgtgctcctcaatgcc
aacagccatcagctccacagtgccagcagtgccagaatacttgccagcagtatgctccag
tttgccagcaacagtgtactccacaatgcacacttccatctgcaccagcttgccaacaat
gtcaaacttcgtgccaacagactcaacagtgccaacaacaatgtattccacaatgtcagc
aaccagctgctccacaatgtcagcaatgccaatcagcatgccaatctccagttgttgctc
cacaaattgtgactgtcatcctagaaccttcagtgtctcaatctgctcaatgtgttccac
aatgccaacaatcatgccaacaacaatgcattcaacaacaacaaccaatgcagcaatgtg
ctccagcatgcacccaatcatgctatcaatcgtgctctactg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGTCAACCATCATGCATGCCAGC 100 165 395 Antisense
TGAACAATCCTGTGTTGCTCCAGCT 621 573 423 Antisense
GTGTCAACAACAGTGTGCTCCTCAA 691 485 486 Antisense
GTTTGCCAGCAACAGTGTACTCCAC 433 451 574 Antisense
TCCACAATGCACACTTCCATCTGCA 155 589 594 Antisense
TCTGCACCAGCTTGCCAACAATGTC 438 609 613 Antisense
CCAATCAGCATGCCAATCTCCAGTT 533 277 723 Antisense
TTGTGACTGTCATCCTAGAACCTTC 222 705 761 Antisense
GAACCTTCAGTGTCTCAATCTGCTC 625 345 778 Antisense
GCAGCAATGTGCTCCAGCATGCACC 182 313 864 Antisense
TCATGCTATCAATCGTGCTCTACTG 340 621 892 Antisense
Sequence Source Affymetrix Proprietary Database