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[189207_at]

Description C28H8.6 /REP_DB=WormBase Gene ID /WP=CE01828 /TR=SW:Q09476 /GB=AAA62294.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=LIM domains
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 21      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 62      6grp_total > 32      4grp_total > 25      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 415
1 2 3 4 range
A 326.3
(-3)
P 		459.1
(-1.1)
P 		423.4
(-1.6)
P 		741.1
(3)
P 		415
B 348.5
(-3)
P 		582.8
(3)
P 		499.6
(0.9)
P 		574.5
(2.8)
P 		234
C 410.5
(-3)
P 		518.2
(-0.3)
P 		460.5
(-1.8)
P 		650.6
(3)
P 		240
avr 361.8
(-3) 		520
(0.2) 		461.2
(-1) 		655.4
(3) 		294

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 407
1 2 3 4 5 6 range
A 448
(-0.3)
P 		508
(1.4)
P 		566.4
(3)
P 		548.8
(2.5)
P 		446.1
(-0.3)
P 		348.1
(-3)
P 		218
B 503.2
(2.6)
P 		517.5
(3)
P 		480.5
(1.9)
P 		453
(1.1)
P 		408.3
(-0.3)
P 		319
(-3)
P 		199
C 493.6
(1.2)
P 		483.4
(1)
P 		618.2
(3)
P 		494.7
(1.2)
P 		440
(0.4)
P 		210.9
(-3)
P 		407
avr 481.6
(1.3) 		503
(1.8) 		555
(3) 		498.8
(1.7) 		431.5
(0.2) 		292.7
(-3) 		262
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 118.8
(3)
P 		99.7
(-3)
P 		110.7
(0.5)
P 		108.5
(-0.2)
P 		19
B 111.1
(-3)
P 		143.9
(3)
P 		115.8
(-2.1)
P 		122.4
(-0.9)
P 		33
C 135.9
(0.1)
P 		149
(1.6)
P 		160.5
(3)
P 		109.7
(-3)
P 		51
avr 121.9
(-0.1) 		130.9
(3) 		129
(2.3) 		113.5
(-3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 112
1 2 3 4 5 6 range
A 82.6
(-3)
P 		180.7
(3)
P 		123.3
(-0.5)
P 		139.2
(0.5)
P 		134.6
(0.2)
P 		84.8
(-2.9)
P 		98
B 175.1
(3)
P 		172.3
(2.7)
P 		116.7
(-3)
P 		120
(-2.7)
P 		165.9
(2.1)
P 		119
(-2.8)
P 		58
C 183
(3)
P 		147.5
(1.1)
P 		157.3
(1.6)
P 		99.5
(-1.5)
P 		142.4
(0.8)
P 		70.6
(-3)
P 		112
avr 146.9
(1.4) 		166.8
(3) 		132.4
(0.3) 		119.6
(-0.8) 		147.6
(1.5) 		91.5
(-3) 		75
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189207_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7430
Sequence Type Exemplar sequence
Representative Public ID C28H8.6 NCBI
Target Description C28H8.6 /REP_DB=WormBase Gene ID /WP=CE01828 /TR=SW:Q09476 /GB=AAA62294.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=LIM domains
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_001026014(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026014 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-327) (tag-327) mRNA, complete cds. 11/11 None
GENEFINDER00000005445 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5889755:5895955:-1 11/11 None
SNAP00000005431 ENSEMBL cdna:SNAP chromosome:CEL140:III:5890348:5892313:-1 11/11 None
C28H8.6a ENSEMBL cdna:known chromosome:CEL140:III:5890348:5894131:-1 gene:C28H8.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026015 7/11 Cross Hyb Matching Probes None
C28H8.6b 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175831 2 1 NM_001026014 189207_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5890346-5892312(-) 100.0 100.0
Public Domain and Genome References
Ensembl C28H8.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001021185 Temporarily Assigned Gene name family member (tag-327) [Caenorhabditis elegans] gb|AAA62294.1| Temporarily assigned gene name protein 327, isoform a [Caenorhabditis elegans] sp|Q09476|YP96_CAEEL Hypothetical protein C28H8.6 in chromosome III 1.0E-165
blast CAE64354 Hypothetical protein CBG09041 [Caenorhabditis briggsae] 1.0E-162
blast NP_001021185 Temporarily Assigned Gene name family member (tag-327) [Caenorhabditis elegans] gb|AAA62294.1| Temporarily assigned gene name protein 327, isoform a [Caenorhabditis elegans] sp|Q09476|YP96_CAEEL Hypothetical protein C28H8.6 in chromosome III 1.0E-161
blast CAE64354 Hypothetical protein CBG09041 [Caenorhabditis briggsae] 1.0E-158
blast NP_001021186 Temporarily Assigned Gene name family member (tag-327) [Caenorhabditis elegans] gb|AAT92079.1| Temporarily assigned gene name protein 327, isoform b [Caenorhabditis elegans] 1.0E-124
blast NP_001021186 Temporarily Assigned Gene name family member (tag-327) [Caenorhabditis elegans] gb|AAT92079.1| Temporarily assigned gene name protein 327, isoform b [Caenorhabditis elegans] 1.0E-102
Protein Domains
Database ID Description E-Value
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 1.6E-21
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 4.7E-27
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 1.9E-22
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 3.1E-16
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 1.6E-21
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 4.7E-27
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 1.9E-22
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 1.0E-17
Sequence
Target Sequence 
>C. ELEGANS:189207_AT
tgcggtgccgaacttggacaacgcccattctttgagagaaatggacgtgctttttgtgaa
gaagattatcacaatcaattcagtccaaagtgccaaggatgtcatcgagccatcactgat
agatgtgtgagtgtaatgaacaagaacttccacattgaatgcttcacgtgtgcagaatgc
aatcaaccattcggagaggatggattccatgagaagaatggacaaacctattgcaaacgt
gacttcttccgtctattcgccccaaaatgcaatggctgctctcaaccaatcacctcaaac
tttatcaccgctttgggaactcattggcatccggattgttttgtctgtcagcattgcgga
gtttctttcaatggtgcaagtttctttgagcacaacggtgctccactctgtgagcgacat
tatcatgaatctcgtggttcaatctgttctcaatgtcgtggagccattaatggaagatgt
gtagctgcaatgggaagaaagttccatccggaacattttagatgctcatattgtaatcat
caactgacaaaaggaacattcaaagaagttgatcgtcggccattctgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCGGTGCCGAACTTGGACAACGCC 54 555 154 Antisense
TTGGACAACGCCCATTCTTTGAGAG 225 709 167 Antisense
GAACTTCCACATTGAATGCTTCACG 372 351 297 Antisense
TGCAAACGTGACTTCTTCCGTCTAT 628 575 385 Antisense
CAATCACCTCAAACTTTATCACCGC 572 181 440 Antisense
ATCACCGCTTTGGGAACTCATTGGC 364 27 457 Antisense
GCATCCGGATTGTTTTGTCTGTCAG 551 309 480 Antisense
GTCAGCATTGCGGAGTTTCTTTCAA 164 467 500 Antisense
GTGCTCCACTCTGTGAGCGACATTA 317 479 551 Antisense
ATCTCGTGGTTCAATCTGTTCTCAA 401 33 582 Antisense
AGAAGTTGATCGTCGGCCATTCTGT 127 73 717 Antisense
Sequence Source Affymetrix Proprietary Database