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[186777_s_at]

Description Y111B2A.14 /REP_DB=WormBase Gene ID /WP=CE26631 /TR=Q9NEX0 /GB=CAC35843.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 04      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 80      6grp_total > 15      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 183
1 2 3 4 range
A 242.5
(2.3)
P 		213.7
(1)
P 		123.3
(-3)
P 		259.3
(3)
P 		136
B 266.1
(3)
P 		188.1
(0.1)
P 		107
(-3)
P 		154.4
(-1.2)
P 		159
C 290.4
(3)
P 		147.9
(-3)
P 		158.8
(-2.5)
P 		200.8
(-0.8)
P 		143
avr 266.3
(3) 		183.2
(-0.7) 		129.7
(-3) 		204.8
(0.3) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 232
1 2 3 4 5 6 range
A 343.5
(3)
P 		225.3
(-0.6)
P 		197.1
(-1.5)
P 		148.7
(-3)
P 		192.1
(-1.7)
P 		165.7
(-2.5)
P 		195
B 319.9
(3)
P 		271.7
(1.5)
P 		209.8
(-0.3)
P 		198.8
(-0.7)
P 		122.6
(-3)
P 		134.6
(-2.6)
P 		197
C 271.7
(1.8)
P 		311.4
(3)
P 		245.9
(1)
P 		188.7
(-0.7)
P 		188.8
(-0.7)
P 		111.6
(-3)
P 		200
avr 311.7
(3) 		269.5
(1.5) 		217.6
(-0.2) 		178.7
(-1.6) 		167.8
(-2) 		137.3
(-3) 		174
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 88.3
(3)
P 		46.4
(-1.5)
P 		32.2
(-3)
P 		38
(-2.4)
P 		56
B 84.8
(3)
P 		46.4
(-0.8)
P 		24.8
(-3)
P 		32.9
(-2.2)
P 		60
C 96.1
(3)
P 		42.5
(-2.2)
P 		55.4
(-0.9)
P 		33.9
(-3)
P 		62
avr 89.7
(3) 		45.1
(-1.9) 		37.5
(-2.7) 		34.9
(-3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 63.3
(0.6)
P 		80.1
(3)
P 		42.9
(-2.3)
P 		37.7
(-3)
P 		58
(-0.1)
P 		40.3
(-2.6)
P 		42
B 111.3
(3)
P 		90.4
(1)
P 		50.9
(-2.9)
P 		52.7
(-2.7)
P 		49.8
(-3)
P 		50.2
(-3)
P 		62
C 100.7
(3)
P 		95
(2.5)
P 		62.6
(-0.6)
P 		37.9
(-3)
P 		61.1
(-0.8)
P 		37.4
(-3)
P 		63
avr 91.8
(3) 		88.5
(2.6) 		52.1
(-1.8) 		42.8
(-3) 		56.3
(-1.3) 		42.6
(-3) 		49
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186777_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6849
Sequence Type Exemplar sequence
Representative Public ID Y111B2A.14 NCBI
Target Description Y111B2A.14 /REP_DB=WormBase Gene ID /WP=CE26631 /TR=Q9NEX0 /GB=CAC35843.1 /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_067244(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067244 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-80) (pqn-80) mRNA, complete cds. 11/11 None
GENEFINDER00000006291 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12640958:12651106:1 11/11 None
SNAP00000006163 ENSEMBL cdna:SNAP chromosome:CEL140:III:12649548:12660653:1 9/11 None
Y111B2A.14.1 ENSEMBL cdna:known chromosome:CEL140:III:12626443:12651632:1 gene:Y111B2A.14 11/11 None
Y111B2A.14.2 ENSEMBL cdna:known chromosome:CEL140:III:12626450:12651567:1 gene:Y111B2A.14 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000006162 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:12626445-12651102(+) 90.44 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-80
Ensembl Y111B2A.14
Entrez Gene 176683 Entrez gene
SwissProt Q9NEX0 EMBL-EBI
WormBase CE28848 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC35843 Hypothetical protein Y111B2A.14 [Caenorhabditis elegans] ref|NP_499645.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-80) [Caenorhabditis elegans] 0.0
blast CAC35843 Hypothetical protein Y111B2A.14 [Caenorhabditis elegans] ref|NP_499645.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-80) [Caenorhabditis elegans] 1.0E-165
blast NP_492844 F49D11.5 [Caenorhabditis elegans] 9.0E-93
blast NP_494135 ZK250.3 [Caenorhabditis elegans] 3.0E-69
blast NP_498860 ZK1236.4 [Caenorhabditis elegans] sp|P34620|YO84_CAEEL Hypothetical protein ZK1236.4 in chromosome III 1.0E-59
blast CAE72839 Hypothetical protein CBG20130 [Caenorhabditis briggsae] 5.0E-38
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 0.03
Sequence
Target Sequence 
>C. ELEGANS:186777_S_AT
cacgtcatcttcatctggaggagtcaatcagttttataataatggtggagctgcaccgcc
agttgtcgaacaacaagccgctaatagaagatcatcattcacaatgtctcattcagttca
acaacaccaatctcctctccaacaacaatttccaatcaattcatatcaatcaccgagtca
tcataataatagtagctcaatgagcaattcctcattaatgcaaacaccacacagtaatag
ttcaatgattgcacggagtccacaatttccatctcatacgtccccaatgtcccaacgatt
ccataccccaccatcagttgggcatcaaatggtgcagagcccattgtctcaaccgaatcc
ttcgcctcttcaacatttcaacttttcgccacattcctccagtttttcatcacaaagacc
tcaaatgccgccacaacgtcaaatgagccaacaaaatctcatgcatcaacagcaacaacc
acaaaatcatactcaacatcagtaccaacatcagacattcagttctcagcaacaacag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACGTCATCTTCATCTGGAGGAGTC 658 199 4131 Antisense
TAATGGTGGAGCTGCACCGCCAGTT 154 635 4170 Antisense
TTCAGTTCAACAACACCAATCTCCT 335 687 4242 Antisense
TTCATATCAATCACCGAGTCATCAT 310 689 4290 Antisense
GTTCAATGATTGCACGGAGTCCACA 709 443 4370 Antisense
GGAGTCCACAATTTCCATCTCATAC 464 517 4385 Antisense
CATACCCCACCATCAGTTGGGCATC 310 213 4432 Antisense
ATGGTGCAGAGCCCATTGTCTCAAC 359 51 4459 Antisense
TTCAACATTTCAACTTTTCGCCACA 121 687 4499 Antisense
ATTCCTCCAGTTTTTCATCACAAAG 235 9 4523 Antisense
GACATTCAGTTCTCAGCAACAACAG 511 369 4644 Antisense
Sequence Source Affymetrix Proprietary Database