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[171951_x_at]

Description AV176994_rc /REP_DB=TREMBL Accession /GB=AV176994 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk521f1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 90      6grp_high1_10_10 > 09      4grp_highest_8_8 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 61      6grp_total > 19      4grp_total > 61      6grp_cgc > 51      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 492
1 2 3 4 range
A 639.7
(3)
P 		355.2
(-0.5)
P 		299.9
(-1.1)
P 		147.5
(-3)
P 		492
B 486.1
(3)
P 		384.2
(0.8)
P 		353.4
(0.1)
P 		210.5
(-3)
P 		276
C 513.1
(2.3)
P 		487.6
(1.9)
P 		558.5
(3)
P 		157
(-3)
P 		402
avr 546.3
(3) 		409
(0.8) 		403.9
(0.7) 		171.7
(-3) 		375

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 673
1 2 3 4 5 6 range
A 304.9
(-3)
P 		449.8
(1.2)
P 		510.8
(3)
P 		438.2
(0.9)
P 		413.1
(0.2)
P 		305.8
(-3)
P 		206
B 456.3
(1.8)
P 		391.9
(0.5)
P 		368.4
(0)
P 		386.8
(0.4)
P 		513.7
(3)
P 		220.9
(-3)
P 		293
C 806.4
(3)
P 		274.3
(-1.7)
P 		390.5
(-0.7)
P 		308.1
(-1.4)
P 		603.9
(1.2)
P 		133.9
(-3)
P 		673
avr 522.5
(3) 		372
(0) 		423.2
(1) 		377.7
(0.1) 		510.2
(2.8) 		220.2
(-3) 		302
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 211
1 2 3 4 range
A 232.9
(3)
P 		77.1
(-1.4)
P 		78.4
(-1.4)
P 		21.6
(-3)
P 		211
B 155
(3)
P 		94.9
(-0.3)
P 		81.9
(-1)
P 		44.9
(-3)
P 		110
C 169.8
(2.1)
P 		140.2
(1.1)
P 		194.6
(3)
P 		26.5
(-3)
P 		168
avr 185.9
(3) 		104.1
(-0.2) 		118.3
(0.4) 		31
(-3) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 254
1 2 3 4 5 6 range
A 56.2
(-3)
P 		160
(3)
P 		111.2
(0.2)
P 		111.1
(0.2)
P 		124.7
(1)
P 		74.5
(-1.9)
P 		104
B 158.8
(0.6)
P 		130.4
(-0.7)
P 		89.5
(-2.7)
P 		102.4
(-2)
P 		208.7
(3)
P 		82.4
(-3)
P 		126
C 298.9
(3)
P 		83.7
(-2.1)
P 		99.4
(-1.7)
P 		62
(-2.6)
P 		195.4
(0.6)
P 		44.8
(-3)
P 		254
avr 171.3
(2.7) 		124.7
(0.2) 		100
(-1.2) 		91.8
(-1.6) 		176.3
(3) 		67.2
(-3) 		109
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171951_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27770
Sequence Type Exemplar sequence
Representative Public ID AV176994 NCBI
Target Description AV176994_rc /REP_DB=TREMBL Accession /GB=AV176994 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk521f1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_001027682(10), NM_001027683(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027682 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) (pqn-83) mRNA, complete cds. 10/11 None
NM_001027683 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) (pqn-83) mRNA, complete cds. 9/11 None
Y39E4B.3a ENSEMBL cdna:known chromosome:CEL140:III:13087007:13098971:-1 gene:Y39E4B.3 10/11 A 
Y39E4B.3b ENSEMBL cdna:known chromosome:CEL140:III:13087008:13098971:-1 gene:Y39E4B.3 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012007 6/11 Cross Hyb Matching Probes None
GENEFINDER00000012031 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176729 3 2 NM_001027682 171951_x_at (10), 180024_s_at (11), 194174_x_at (9)
NM_001027683 171951_x_at (9), 180024_s_at (11), 194174_x_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Ensembl Y39E4B.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH10817 Hypothetical protein Y39E4B.3b [Caenorhabditis elegans] ref|NP_001022854.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) [Caenorhabditis elegans] 6.0E-76
blast CAH10818 Hypothetical protein Y39E4B.3c [Caenorhabditis elegans] ref|NP_001022855.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) [Caenorhabditis elegans] 4.0E-68
blast CAB54432 Hypothetical protein Y39E4B.3a [Caenorhabditis elegans] ref|NP_001022853.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) [Caenorhabditis elegans] 1.0E-67
blast CAB54432 Hypothetical protein Y39E4B.3a [Caenorhabditis elegans] ref|NP_001022853.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) [Caenorhabditis elegans] 7.0E-67
blast CAH10818 Hypothetical protein Y39E4B.3c [Caenorhabditis elegans] ref|NP_001022855.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) [Caenorhabditis elegans] 2.0E-66
blast CAH10817 Hypothetical protein Y39E4B.3b [Caenorhabditis elegans] ref|NP_001022854.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-83) [Caenorhabditis elegans] 2.0E-66
Protein Domains
Database ID Description E-Value
Pfam IPR002619 EMBL-EBI Protein of unknown function CX 1.7E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022853.1 1 291-313
Y39E4B.3a 1 291-313
Sequence
Target Sequence 
>C. ELEGANS:171951_X_AT
accatcgcactcattgtcatcattatccttattntccttctgctgtggatgctgcctggg
tgcntnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnca
gtatcatgatgattannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn
nnnnnnnnnnnnncaatacggacaatattatcaacaaccacagcaaggcggttattcann
nnnnnnnnnnnnnggaggatatccacaaggaggaaattattatccaccaaacaattatca
acagcaaccaacttattgattttccggttatttccgat

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCATCGCACTCATTGTCATCATTA 368 87 31 Antisense
CGCACTCATTGTCATCATTATCCTT 188 255 36 Antisense
ACTCATTGTCATCATTATCCTTATT 174 101 39 Antisense
GGACAATATTATCAACAACCACAGC 21 527 230 Antisense
ACAACCACAGCAAGGCGGTTATTCA 399 113 244 Antisense
GGAGGATATCCACAAGGAGGAAATT 202 517 284 Antisense
GGAGGAAATTATTATCCACCAAACA 587 515 299 Antisense
TATCCACCAAACAATTATCAACAGC 560 655 311 Antisense
AACAATTATCAACAGCAACCAACTT 361 133 320 Antisense
GCAACCAACTTATTGATTTTCCGGT 255 317 334 Antisense
TATTGATTTTCCGGTTATTTCCGAT 492 665 344 Antisense
Sequence Source Affymetrix Proprietary Database