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[173499_s_at]

Description C60352 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0228.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C60352 /WB_GENE_ID=B0228.4 /WP=CE02414 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk195d8 : 5prime end, single read.
Cluster 6grp_high1_10_10 > 78      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_total > 59      4grp_total > 46      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 156
1 2 3 4 range
A 243.9
(3)
P 		160.8
(-0.2)
P 		88.4
(-3)
P 		161
(-0.2)
P 		156
B 225.9
(3)
P 		167.9
(0.2)
P 		101.5
(-3)
P 		104.8
(-2.8)
P 		124
C 229.2
(3)
P 		135.9
(-2.7)
P 		131.2
(-3)
P 		141.9
(-2.3)
P 		98
avr 233
(3) 		154.9
(-0.7) 		107
(-3) 		135.9
(-1.6) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 144.3
(-0.6)
A 		240.7
(2.4)
P 		67.9
(-3)
A 		260.1
(3)
P 		147
(-0.5)
P 		223.9
(1.9)
P 		192
B 114.3
(-1.7)
P 		127.9
(-0.9)
P 		89.7
(-3)
P 		121.8
(-1.3)
P 		200.2
(3)
P 		188.5
(2.4)
P 		111
C 274.5
(3)
P 		153.3
(-3)
P 		233.2
(1)
P 		162.4
(-2.5)
P 		210.9
(-0.1)
P 		230.9
(0.8)
P 		121
avr 177.7
(0.4) 		174
(0.1) 		130.3
(-3) 		181.4
(0.6) 		186
(1) 		214.4
(3) 		84
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 88.8
(3)
P 		34.9
(-1.9)
P 		23.1
(-3)
P 		23.6
(-3)
P 		66
B 72
(3)
P 		41.5
(-0.7)
P 		23.5
(-2.9)
P 		22.3
(-3)
P 		50
C 75.9
(3)
P 		39.1
(-1.2)
P 		45.7
(-0.5)
P 		23.9
(-3)
P 		52
avr 78.9
(3) 		38.5
(-1.4) 		30.8
(-2.2) 		23.3
(-3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 26.6
(-2)
A 		85.6
(3)
P 		14.8
(-3)
A 		66
(1.3)
P 		44.4
(-0.5)
P 		54.5
(0.4)
P 		71
B 39.8
(-1.2)
P 		42.6
(-0.9)
P 		21.8
(-3)
P 		32.3
(-1.9)
P 		81.3
(3)
P 		70.3
(1.9)
P 		60
C 101.7
(3)
P 		46.8
(-1.8)
P 		59.4
(-0.7)
P 		32.7
(-3)
P 		68.3
(0.1)
P 		77.3
(0.9)
P 		69
avr 56
(1.1) 		58.3
(1.5) 		32
(-3) 		43.7
(-1) 		64.7
(2.5) 		67.4
(3) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173499_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23593
Sequence Type Exemplar sequence
Representative Public ID C60352 NCBI
Target Description C60352 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0228.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C60352 /WB_GENE_ID=B0228.4 /WP=CE02414 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk195d8 : 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_063224(11), NM_063222(11), NM_182100(11), NM_001026713(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063224 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-308) (tag-308) mRNA, complete cds. 11/11 None
NM_063222 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-308) (tag-308) mRNA, complete cds. 11/11 A 
NM_182100 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-308) (tag-308) mRNA, complete cds. 11/11 None
NM_001026713 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-308) (tag-308) mRNA, complete cds. 11/11 None
SNAP00000020599 ENSEMBL cdna:SNAP chromosome:CEL140:II:7724818:7732046:1 11/11 None
GENEFINDER00000020737 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7725004:7752348:1 11/11 None
B0228.4b ENSEMBL cdna:known chromosome:CEL140:II:7724818:7739407:1 gene:B0228.4 11/11 None
B0228.4c ENSEMBL cdna:known chromosome:CEL140:II:7724818:7752635:1 gene:B0228.4 11/11 None
B0228.4d ENSEMBL cdna:known chromosome:CEL140:II:7724818:7731298:1 gene:B0228.4 11/11 None
B0228.4a ENSEMBL cdna:known chromosome:CEL140:II:7724818:7752348:1 gene:B0228.4 11/11 A 
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
chrII:7724815-7730078(+) 98.15 100.0
Public Domain and Genome References
Ensembl B0228.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAU87832 Temporarily assigned gene name protein 308, isoform c [Caenorhabditis elegans] ref|NP_495625.2| Temporarily Assigned Gene name family member (tag-308) [Caenorhabditis elegans] 0.0
blast T29042 hypothetical protein B0228.3 - Caenorhabditis elegans 0.0
blast AAU87831 Temporarily assigned gene name protein 308, isoform b [Caenorhabditis elegans] ref|NP_871900.2| Temporarily Assigned Gene name family member (tag-308) [Caenorhabditis elegans] 0.0
blast AAC38806 Temporarily assigned gene name protein 308, isoform a [Caenorhabditis elegans] ref|NP_495623.2| Temporarily Assigned Gene name family member (tag-308) [Caenorhabditis elegans] sp|Q09221|YP74_CAEEL Hypothetical protein B0228.4 in chromosome II 0.0
blast AAU87833 Temporarily assigned gene name protein 308, isoform d [Caenorhabditis elegans] ref|NP_001021884.1| Temporarily Assigned Gene name family member (tag-308) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010734 EMBL-EBI Copine 1.4E-70
Pfam IPR010734 EMBL-EBI Copine 1.4E-70
Pfam IPR010734 EMBL-EBI Copine 1.4E-70
Sequence
Target Sequence 
>C. ELEGANS:173499_S_AT
ataaccattctccaattgtagctgaggttagaagaccaaagttgaagaaagaaaacacta
caattggatgtactatttcaaatcagaaagcaacttcagcaaacgcagaattgacaacta
aacatgtcaacactgaaaagggatctggaaagttccgtgaacttggagaagaacaagcaa
tgatgctttgtggatttgaaaatcaaaagagttccaaagaagaagtcaccggatctcgtc
aacaaaagaacgaaatcaaagttgcatttgctgcgggatcagctgaaactgaaaatacca
caatctcgactacaatcttccatgatgctgactcatttgctgttgaaggatcttcaaaat
ctgccaactcaactgccacttacggacgattcaaagaaatgtcagaagagaatgcttcaa
acatggtttatcttcagaagagtgaaagttcaagctctaatttgagtggagcagaaacta
agatgaaggatatacaacgccaatcatctgaagctcgtttctccgaattcaaacaagtag
ccgaaagctgtgcagtcatgatcaaaaatactggagttgaacgtggatcgacatctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATAACCATTCTCCAATTGTAGCTGA 535 25 3163 Antisense
AGAAGAAGTCACCGGATCTCGTCAA 174 75 3380 Antisense
AAAGTTGCATTTGCTGCGGGATCAG 2 123 3420 Antisense
CACAATCTCGACTACAATCTTCCAT 112 195 3461 Antisense
TGATGCTGACTCATTTGCTGTTGAA 9 567 3485 Antisense
GATCTTCAAAATCTGCCAACTCAAC 107 419 3511 Antisense
AACTCAACTGCCACTTACGGACGAT 268 139 3528 Antisense
TATACAACGCCAATCATCTGAAGCT 240 661 3653 Antisense
ATCTGAAGCTCGTTTCTCCGAATTC 479 33 3668 Antisense
GTAGCCGAAAGCTGTGCAGTCATGA 45 457 3699 Antisense
GGAGTTGAACGTGGATCGACATCTT 470 515 3735 Antisense
Sequence Source Affymetrix Proprietary Database