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[187849_at]

Description F55A12.9 /REP_DB=WormBase Gene ID /WP=CE08345 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:P91086 protein_id:AAB54127.1
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 69      4grp_highest_8_8 > 37      4grp_high_8_8 > 01      6grp_highest_nonorm > 68      6grp_total > 79      4grp_total > 15      6grp_highest_sub > Cu      6grp_cgc > 19      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2067
1 2 3 4 range
A 3053
(1.5)
P 		1671.7
(-3)
P 		2004.1
(-1.9)
P 		3511.3
(3)
P 		1840
B 3092.1
(0.9)
P 		1861.9
(-3)
P 		2628.5
(-0.5)
P 		3739
(3)
P 		1877
C 3518.3
(3)
P 		2066.1
(-3)
P 		2560.2
(-1)
P 		3230.3
(1.8)
P 		1452
avr 3221.1
(2) 		1866.6
(-3) 		2397.6
(-1) 		3493.5
(3) 		1627

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1320
1 2 3 4 5 6 range
A 1703.2
(-1.2)
P 		2617.6
(3)
P 		1314.9
(-3)
P 		1877.8
(-0.4)
P 		2037.1
(0.3)
P 		2520.3
(2.6)
P 		1303
B 1807.7
(-2.1)
P 		1828.5
(-1.9)
P 		1826.4
(-1.9)
P 		1723.2
(-3)
P 		1940.3
(-0.7)
P 		2301.8
(3)
P 		579
C 1919.2
(-2.2)
P 		2121.6
(-0.7)
P 		1804.1
(-3)
P 		2010.4
(-1.5)
P 		2207
(-0.1)
P 		2634.7
(3)
P 		831
avr 1810
(-1.8) 		2189.2
(0.9) 		1648.5
(-3) 		1870.5
(-1.4) 		2061.5
(-0) 		2485.6
(3) 		837
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 802
1 2 3 4 range
A 1111.6
(3)
P 		362.9
(-3)
P 		523.9
(-1.7)
P 		514
(-1.8)
P 		749
B 986
(3)
P 		459.9
(-3)
P 		609.1
(-1.3)
P 		796.8
(0.8)
P 		526
C 1164.7
(3)
P 		594
(-2.5)
P 		892.3
(0.4)
P 		544.7
(-3)
P 		620
avr 1087.4
(3) 		472.3
(-3) 		675.1
(-1) 		618.5
(-1.6) 		615

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 645
1 2 3 4 5 6 range
A 314
(-2.7)
P 		931
(3)
P 		286.3
(-3)
P 		476.3
(-1.2)
P 		614.7
(0.1)
P 		613.6
(0)
P 		645
B 629
(-0.3)
P 		608.6
(-0.6)
P 		443.5
(-3)
P 		456.4
(-2.8)
P 		788.3
(2)
P 		858.3
(3)
P 		415
C 711.3
(0.9)
P 		647.4
(0.1)
P 		459.2
(-2.3)
P 		404.3
(-3)
P 		714.2
(0.9)
P 		882
(3)
P 		478
avr 551.4
(-0.6) 		729
(2.1) 		396.3
(-3) 		445.7
(-2.2) 		705.7
(1.8) 		784.6
(3) 		388
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187849_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2138
Sequence Type Exemplar sequence
Representative Public ID F55A12.9 NCBI
Target Description F55A12.9 /REP_DB=WormBase Gene ID /WP=CE08345 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:P91086 protein_id:AAB54127.1
Cluster Evidence This cluster is supported by a 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_182025(11), NM_170865(11), NM_059179(11), NM_059180(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182025 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) (pqn-44) mRNA, complete cds. 11/11 None
NM_170865 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) (pqn-44) mRNA, complete cds. 11/11 None
NM_059179 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) (pqn-44) mRNA, complete cds. 11/11 None
NM_059180 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) (pqn-44) mRNA, complete cds. 11/11 None
SNAP00000029051 ENSEMBL cdna:SNAP chromosome:CEL140:I:5373412:5375194:-1 11/11 None
F55A12.9d.4 ENSEMBL cdna:known chromosome:CEL140:I:5372858:5377467:-1 gene:F55A12.9 11/11 A 
F55A12.9d.5 ENSEMBL cdna:known chromosome:CEL140:I:5372858:5384511:-1 gene:F55A12.9 11/11 A 
F55A12.9d.1 ENSEMBL cdna:known chromosome:CEL140:I:5372858:5377484:-1 gene:F55A12.9 11/11 A 
F55A12.9d.2 ENSEMBL cdna:known chromosome:CEL140:I:5372858:5376344:-1 gene:F55A12.9 11/11 A 
F55A12.9d.3 ENSEMBL cdna:known chromosome:CEL140:I:5372858:5379792:-1 gene:F55A12.9 11/11 None
F55A12.9a ENSEMBL cdna:known chromosome:CEL140:I:5373412:5377368:-1 gene:F55A12.9 11/11 None
F55A12.9b ENSEMBL cdna:known chromosome:CEL140:I:5373412:5379759:-1 gene:F55A12.9 11/11 None
F55A12.9c ENSEMBL cdna:known chromosome:CEL140:I:5373412:5384472:-1 gene:F55A12.9 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:5373411-5377368(-) 100.0 100.0
Public Domain and Genome References
Ensembl F55A12.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB54127 Prion-like-(q/n-rich)-domain-bearing protein protein 44, isoform a [Caenorhabditis elegans] ref|NP_491581.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) [Caenorhabditis elegans] 0.0
blast AAK68879 Prion-like-(q/n-rich)-domain-bearing protein protein 44, isoform b [Caenorhabditis elegans] ref|NP_491580.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) [Caenorhabditis elegans] 0.0
blast AAM45365 Prion-like-(q/n-rich)-domain-bearing protein protein 44, isoform c [Caenorhabditis elegans] ref|NP_740852.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-44) [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:187849_AT
ttcttcatcgatttccctgatctaatctcacaggaaaataagctccgaaactacttggat
tctcactttggaacatcatttaacggagccacttacgatcaatggtcttcatctggatca
gatactgattctgaagcatctacttctcaagcgaccacatcttctctcttggttacagga
caggctaaatacgacttcttgatgcttttgtatcgagtaattgacgaaagtactgtttgt
ctgatggctcatgaaaggaatatgtcgttgaacatgattgatcgtgtcgcattccagctc
tcaatgcaatgctacactccaccaaacttctcatcaggttcctcaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTTCATCGATTTCCCTGATCTAA 75 691 1015 Antisense
GCTCCGAAACTACTTGGATTCTCAC 425 295 1056 Antisense
GGAACATCATTTAACGGAGCCACTT 385 529 1084 Antisense
GAGCCACTTACGATCAATGGTCTTC 624 383 1100 Antisense
GAAGCATCTACTTCTCAAGCGACCA 372 341 1147 Antisense
CCACATCTTCTCTCTTGGTTACAGG 246 275 1169 Antisense
GACAGGCTAAATACGACTTCTTGAT 46 369 1193 Antisense
AGTACTGTTTGTCTGATGGCTCATG 413 61 1243 Antisense
TGATTGATCGTGTCGCATTCCAGCT 436 563 1289 Antisense
CTCAATGCAATGCTACACTCCACCA 348 227 1314 Antisense
AAACTTCTCATCAGGTTCCTCAACA 546 127 1338 Antisense
Sequence Source Affymetrix Proprietary Database