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[187205_s_at]

Description C28H8.9 /REP_DB=WormBase Gene ID /WP=CE24814 /TR=SW:Q09477 /GB=AAA62297.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 79      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 84      6grp_total > 79      4grp_total > 39      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 234
1 2 3 4 range
A 564.2
(3)
P 		380
(-3)
P 		384.6
(-2.9)
P 		478.7
(0.2)
P 		184
B 600.1
(3)
P 		430.4
(-2.3)
P 		487.1
(-0.5)
P 		408.1
(-3)
P 		192
C 613.5
(3)
P 		516.1
(-0.2)
P 		429.7
(-3)
P 		556.6
(1.1)
P 		184
avr 592.6
(3) 		442.2
(-2.7) 		433.8
(-3) 		481.1
(-1.2) 		159

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 356
1 2 3 4 5 6 range
A 461.5
(-2.7)
P 		550.2
(-0.4)
P 		486.2
(-2)
P 		447.8
(-3)
P 		646.4
(2)
P 		688.1
(3)
P 		240
B 576.6
(-0.1)
P 		471.2
(-3)
P 		476.6
(-2.9)
P 		539.4
(-1.1)
P 		577.3
(-0.1)
P 		690.3
(3)
P 		219
C 598.8
(-0.3)
P 		510.6
(-1.8)
P 		437.2
(-3)
P 		450.9
(-2.8)
P 		606.6
(-0.1)
P 		793.6
(3)
P 		356
avr 545.6
(-1.2) 		510.7
(-2) 		466.7
(-3) 		479.4
(-2.7) 		610.1
(0.3) 		724
(3) 		257
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 135
1 2 3 4 range
A 205.4
(3)
P 		82.5
(-2.5)
P 		100.5
(-1.7)
P 		70.1
(-3)
P 		135
B 191.4
(3)
P 		106.3
(-1.9)
P 		112.9
(-1.5)
P 		87
(-3)
P 		104
C 203.1
(3)
P 		148.4
(-0)
P 		149.8
(0.1)
P 		93.8
(-3)
P 		109
avr 200
(3) 		112.4
(-1.5) 		121.1
(-1.1) 		83.6
(-3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 181
1 2 3 4 5 6 range
A 85.1
(-3)
P 		195.7
(3)
P 		105.9
(-1.9)
P 		113.6
(-1.5)
P 		195
(3)
P 		167.5
(1.5)
P 		111
B 200.6
(0.6)
P 		156.8
(-1.3)
P 		115.7
(-3)
P 		142.9
(-1.8)
P 		234.6
(2)
P 		257.4
(3)
P 		142
C 221.9
(1.5)
P 		155.8
(-0.8)
P 		111.3
(-2.3)
P 		90.7
(-3)
P 		196.3
(0.6)
P 		265.7
(3)
P 		175
avr 169.2
(-0.1) 		169.4
(-0.1) 		111
(-3) 		115.7
(-2.8) 		208.6
(1.9) 		230.2
(3) 		119
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187205_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7530
Sequence Type Exemplar sequence
Representative Public ID C28H8.9 NCBI
Target Description C28H8.9 /REP_DB=WormBase Gene ID /WP=CE24814 /TR=SW:Q09477 /GB=AAA62297.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_065880(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065880 NCBI Caenorhabditis elegans C28H8.9a (C28H8.9) mRNA, complete cds. 11/11 None
GENEFINDER00000005448 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5903831:5906064:-1 11/11 None
C28H8.9a ENSEMBL cdna:known chromosome:CEL140:III:5903521:5906064:-1 gene:C28H8.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_181909 1/11 Cross Hyb Matching Probes None
SNAP00000005433 5/11 Cross Hyb Matching Probes None
C28H8.9b 1/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175832 2 1 NM_065880 187205_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5903829-5906063(-) 100.0 100.0
Public Domain and Genome References
Ensembl C28H8.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498281 C28H8.9a [Caenorhabditis elegans] gb|AAA62297.3| Hypothetical protein C28H8.9a [Caenorhabditis elegans] sp|Q09477|YP99_CAEEL Hypothetical C28H8.9 in chromosome III 0.0
blast CAE64356 Hypothetical protein CBG09043 [Caenorhabditis briggsae] 1.0E-178
blast G88469 protein C28H8.10 [imported] - Caenorhabditis elegans 1.0E-111
Protein Domains
Database ID Description E-Value
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 2.7E-12
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 1.7E-16
Sequence
Target Sequence 
>C. ELEGANS:187205_S_AT
gggcctgttcagaaagcaacttcgtcacgtaaaaaggtaccaacaactcgttcctctgtc
tctcgattgaccccatctcgttccatagtgaaggaaacaaaatatgaagaaccggaggag
aagacgtatccatgtgacaaatgcagcgcgaaatacaaaagcctcgcgggtttaagctat
catcagtcgtatcttcatgatcaaaagtctagtcaaccactggttaagttattgtctccc
agtatagaaatatctactagctgtgatttctgcagcggcactgcttttatgaacaaaaat
acaaaattgccagaggatctcgttagttgtcatgattgtggtcgttctggtcatccttcc
tgtcttaattttaatcaaaatgtgaccaaaatcataaaaagaagcggatggcagtgtctt
gagtgcaagagttgcaccatttgtggtacaagtgaaaatgatgataaattgctcttctgt
gacgactgtgatcgtggataccatctttattgtctgactccggcgctcgaaaaagctcca
gat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGCCTGTTCAGAAAGCAACTTCGT 202 493 532 Antisense
CCCCATCTCGTTCCATAGTGAAGGA 346 261 602 Antisense
GCCTCGCGGGTTTAAGCTATCATCA 275 281 692 Antisense
GCTGTGATTTCTGCAGCGGCACTGC 538 295 791 Antisense
CCAGAGGATCTCGTTAGTTGTCATG 230 271 841 Antisense
TGTCATGATTGTGGTCGTTCTGGTC 294 559 859 Antisense
TCATCCTTCCTGTCTTAATTTTAAT 30 621 882 Antisense
GAAGCGGATGGCAGTGTCTTGAGTG 602 343 932 Antisense
ATTGCTCTTCTGTGACGACTGTGAT 248 7 999 Antisense
TACCATCTTTATTGTCTGACTCCGG 288 647 1030 Antisense
TCCGGCGCTCGAAAAAGCTCCAGAT 62 595 1050 Antisense
Sequence Source Affymetrix Proprietary Database