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[173974_s_at]

Description AU112567 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y73B6BR.A /5_PRIME_EXT_DB=WormBase Gene ID /GB=AU112567 /WB_GENE_ID=Y73B6BR.A /WP=CE25586 /CHR=4 /FEA=Genomic Cluster /DEF=(ST.LOUIS) protein_id:AAF60877.1; Caenorhabditis elegans cDNA clone:yk744d12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 19      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 70      6grp_total > 29      4grp_total > 39      6grp_cgc > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 205
1 2 3 4 range
A 317.1
(3)
P 		136.5
(-2.8)
P 		129.6
(-3)
P 		231.6
(0.3)
P 		188
B 334.3
(3)
P 		162.4
(-3)
P 		171.3
(-2.7)
P 		189.6
(-2.1)
P 		172
C 270.4
(3)
P 		199.8
(-1.8)
P 		182.1
(-3)
P 		220
(-0.4)
P 		88
avr 307.3
(3) 		166.2
(-2.8) 		161
(-3) 		213.7
(-0.8) 		146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 325
1 2 3 4 5 6 range
A 302.9
(0.5)
P 		359.1
(3)
P 		221.6
(-3)
P 		313.6
(1)
P 		344.6
(2.4)
P 		305.4
(0.7)
P 		138
B 310.3
(2)
P 		335.2
(3)
P 		184.9
(-3)
P 		271
(0.4)
P 		316.9
(2.3)
P 		235
(-1)
P 		150
C 509.5
(3)
P 		311.1
(-1)
P 		212.4
(-3)
P 		321.3
(-0.8)
P 		316.1
(-0.9)
P 		234.9
(-2.5)
P 		297
avr 374.2
(3) 		335.1
(1.6) 		206.3
(-3) 		302
(0.4) 		325.9
(1.3) 		258.4
(-1.1) 		168
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 115.5
(3)
P 		29.6
(-3)
P 		33.9
(-2.7)
P 		33.9
(-2.7)
P 		86
B 106.6
(3)
P 		40.1
(-3)
P 		39.7
(-3)
P 		40.4
(-2.9)
P 		67
C 89.5
(3)
P 		57.5
(-0.7)
P 		63.5
(0)
P 		37.1
(-3)
P 		52
avr 103.9
(3) 		42.4
(-2.5) 		45.7
(-2.2) 		37.1
(-3) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 144
1 2 3 4 5 6 range
A 55.8
(-2.4)
P 		127.7
(3)
P 		48.3
(-3)
P 		79.5
(-0.6)
P 		104
(1.2)
P 		74.4
(-1)
P 		79
B 108
(1.5)
P 		111.6
(1.8)
P 		44.9
(-3)
P 		71.8
(-1.1)
P 		128.7
(3)
P 		87.6
(0.1)
P 		84
C 188.9
(3)
P 		94.9
(-1.2)
P 		54.1
(-3)
P 		64.6
(-2.5)
P 		102.3
(-0.9)
P 		78.6
(-1.9)
P 		135
avr 117.6
(3) 		111.4
(2.5) 		49.1
(-3) 		72
(-1) 		111.7
(2.5) 		80.2
(-0.3) 		69
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173974_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24875
Sequence Type Exemplar sequence
Representative Public ID AU112567 NCBI
Target Description AU112567 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y73B6BR.A /5_PRIME_EXT_DB=WormBase Gene ID /GB=AU112567 /WB_GENE_ID=Y73B6BR.A /WP=CE25586 /CHR=4 /FEA=Genomic Cluster /DEF=(ST.LOUIS) protein_id:AAF60877.1; Caenorhabditis elegans cDNA clone:yk744d12 : 5prime 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_001028406(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028406 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-89) (pqn-89) mRNA, complete cds. 11/11 None
SNAP00000025700 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6506711:6510731:1 11/11 None
GENEFINDER00000025701 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6506711:6510731:1 11/11 None
Y73B6BR.1b.2 ENSEMBL cdna:known chromosome:CEL140:IV:6506708:6511015:1 gene:Y73B6BR.1 10/11 None
Y73B6BR.1b.1 ENSEMBL cdna:known chromosome:CEL140:IV:6506710:6511015:1 gene:Y73B6BR.1 10/11 None
Y73B6BR.1a ENSEMBL cdna:known chromosome:CEL140:IV:6506711:6511016:1 gene:Y73B6BR.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028407 5/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177412 2 1 NM_001028406 173974_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:6506717-6510738(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y73B6BR.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60877 Prion-like-(q/n-rich)-domain-bearing protein protein 89, isoform a [Caenorhabditis elegans] ref|NP_001023577.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-89) [Caenorhabditis elegans] 0.0
blast CAE61527 Hypothetical protein CBG05430 [Caenorhabditis briggsae] 1.0E-174
blast CAE61527 Hypothetical protein CBG05430 [Caenorhabditis briggsae] 1.0E-170
blast AAP31420 Prion-like-(q/n-rich)-domain-bearing protein protein 89, isoform b [Caenorhabditis elegans] ref|NP_001023578.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-89) [Caenorhabditis elegans] 1.0E-160
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023577.1 1 369-391
Y73B6BR.1a 1 369-391
SNAP00000025700 1 369-391
GENEFINDER00000025701 1 392-414
Sequence
Target Sequence 
>C. ELEGANS:173974_S_AT
cttgctctggctctttgattggaccatcatgtgatcttacgtgcaaagcttctcacgtga
atgcaaatgttgctgcttgtgtatcaaattcaactggattcttctcaatctgtaattata
ttaccaatggacaagtggataactgcaagaattgtccatggggaattaaagataatactt
attgtcaagatgatcatggaagtgtacttgatccaagtgaagcgggactcgttggaatgg
gatggagaacagcaactattattcttgcaattctcacattccttttccttttacttcttt
gtgctcttgctctcttcacgtgtgtcaggagtcgccaagccccagctgaaaaagaaatga
caacatttaatagaacatcaagtgatagagaacctcttcacagtgaaaaacatagagaag
cagctgcttatagacaagattcaactgatcgaagaccaatgatgccacctgcacaggatg
ctaaaccaattagatctgcaatgcgaaaaccatattctccagtaaactctggtgaacgag
acgattcaagttttgcgagtgacgttccgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTGCTCTGGCTCTTTGATTGGACC 30 217 859 Antisense
GATTGGACCATCATGTGATCTTACG 161 435 875 Antisense
GTGATCTTACGTGCAAAGCTTCTCA 86 485 889 Antisense
AAGCTTCTCACGTGAATGCAAATGT 37 149 904 Antisense
GCAAATGTTGCTGCTTGTGTATCAA 68 319 921 Antisense
GAAGCGGGACTCGTTGGAATGGGAT 67 343 1077 Antisense
TATTCTTGCAATTCTCACATTCCTT 587 663 1118 Antisense
TCGCCAAGCCCCAGCTGAAAAAGAA 390 599 1190 Antisense
ACCAATGATGCCACCTGCACAGGAT 396 85 1313 Antisense
AAACCATATTCTCCAGTAAACTCTG 40 127 1365 Antisense
TCAAGTTTTGCGAGTGACGTTCCGG 140 627 1404 Antisense
Sequence Source Affymetrix Proprietary Database