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[182977_at]

Description C48E7.4 /REP_DB=WormBase Gene ID /WP=CE08819 /TR=O02079 /GB=AAK21355.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 71      6grp_total > 41      4grp_total > 61      6grp_highest_sub > 03      6grp_cgc > 83      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 299
1 2 3 4 range
A 342
(3)
P 		319.5
(2.5)
P 		189.2
(-0.6)
P 		89.2
(-3)
A 		253
B 297.9
(2.8)
P 		252.7
(1.6)
P 		303.5
(3)
P 		92
(-3)
P 		212
C 387.7
(3)
P 		261.4
(0.1)
P 		306.3
(1.1)
P 		124.4
(-3)
A 		263
avr 342.5
(3) 		277.9
(1.4) 		266.3
(1.1) 		101.9
(-3) 		241

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 434
1 2 3 4 5 6 range
A 289.8
(-0)
P 		346.7
(0.7)
P 		510.3
(3)
P 		343.4
(0.7)
P 		232
(-0.8)
P 		75.9
(-3)
P 		434
B 250.6
(-1.1)
P 		308.6
(0)
P 		464.4
(3)
P 		345
(0.7)
P 		270.3
(-0.7)
P 		152.5
(-3)
P 		312
C 245.7
(-0.9)
P 		431.4
(2)
P 		497.8
(3)
P 		425
(1.9)
P 		228.3
(-1.1)
P 		105.1
(-3)
P 		393
avr 262
(-0.6) 		362.2
(1) 		490.8
(3) 		371.1
(1.1) 		243.5
(-0.9) 		111.2
(-3) 		380
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 124.5
(3)
P 		69.4
(0)
P 		49.5
(-1)
P 		13.1
(-3)
A 		111
B 95
(3)
P 		62.4
(0.4)
P 		70.3
(1)
P 		19.6
(-3)
P 		75
C 128.3
(3)
P 		75.2
(0)
P 		106.7
(1.8)
P 		21
(-3)
A 		107
avr 115.9
(3) 		69
(0.1) 		75.5
(0.5) 		17.9
(-3) 		98

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 53.4
(-1)
P 		123.3
(3)
P 		111.1
(2.3)
P 		87.1
(0.9)
P 		70
(-0.1)
P 		18.5
(-3)
P 		105
B 87.2
(0.3)
P 		102.7
(1.9)
P 		112.8
(3)
P 		91.4
(0.7)
P 		109.8
(2.7)
P 		56.8
(-3)
P 		56
C 91.1
(0.5)
P 		131.6
(3)
P 		126.7
(2.7)
P 		85.5
(0.1)
P 		73.9
(-0.6)
P 		35.2
(-3)
P 		96
avr 77.2
(-0.1) 		119.2
(3) 		116.9
(2.8) 		88
(0.7) 		84.6
(0.5) 		36.8
(-3) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182977_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.992
Sequence Type Exemplar sequence
Representative Public ID C48E7.4 NCBI
Target Description C48E7.4 /REP_DB=WormBase Gene ID /WP=CE08819 /TR=O02079 /GB=AAK21355.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059403(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059403 NCBI Caenorhabditis elegans COlmedin (collagen plus olFactomedin) family member (cof-2) (cof-2) mRNA, complete cds. 11/11 None
GENEFINDER00000002353 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6258706:6261613:1 10/11 None
SNAP00000002341 ENSEMBL cdna:SNAP chromosome:CEL140:I:6258984:6260935:1 11/11 None
C48E7.5 ENSEMBL cdna:known chromosome:CEL140:I:6258706:6260956:1 gene:C48E7.5 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:6260003-6260864(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol cof-2
Ensembl C48E7.5
Entrez Gene 183582 Entrez gene
SwissProt Q8IG71 EMBL-EBI
WormBase CE36279 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1595073_AT similar to collomin cfa
CANINE:1591151_AT similar to collomin cfa
CANINE_2:CFAAFFX.23602.1.S1_S_AT similar to collomin cfa
CHICKEN:GGAAFFX.8464.1.S1_AT similar to VDLC9339 gga
HU35KSUBB:RC_H04768_AT gliomedin hs
U133_X3P:HS.30484.0.A1_3P_AT gliomedin hs
HG-U133_PLUS_2:230360_AT gliomedin hs
HG-U133B:230360_AT gliomedin hs
HG-U95C:64210_AT gliomedin hs
HU35KSUBC:RC_N51935_AT Gliomedin hs
U133_X3P:HS.47374.0.S1_3P_AT Gliomedin hs
HG-U133_PLUS_2:232649_AT Gliomedin hs
HG-U133B:232649_AT Gliomedin hs
HG-U95B:54371_AT Gliomedin hs
HG-U95B:45090_AT Gliomedin hs
HU35KSUBC:RC_R27788_AT Gliomedin hs
Protein Similarities
Method ID Description E-Value
blast AAN60526 Colmedin (collagen plus olfactomedin) family protein 2 [Caenorhabditis elegans] ref|NP_491804.2| COlmedin (collagen plus olFactomedin) family member (cof-2) [Caenorhabditis elegans] gb|AAR87492.1| collagen/olfactomedin domain containing protein 2 [Caenorhabditis elegans] 0.0
blast T15173 hypothetical protein C48E7.4 - Caenorhabditis elegans 1.0E-125
blast CAE67148 Hypothetical protein CBG12573 [Caenorhabditis briggsae] 1.0E-122
Protein Domains
Database ID Description E-Value
Pfam IPR003112 EMBL-EBI Olfactomedin-like 1.7E-34
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.3E-5
Pfam IPR003112 EMBL-EBI Olfactomedin-like 4.6E-33
Pfam IPR003112 EMBL-EBI Olfactomedin-like 1.7E-34
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.3E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491804.2 1 7-29
C48E7.5 1 7-29
GENEFINDER00000002353 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:182977_AT
gaccatgtcggaaaagtccatcgccttccatatatattcgatggaacaaatcatgttatt
ttcaatgcatctcttttctatcaaagagcaggatatccaattattgcaaaatacgagttc
aactcgaaacagtactcacagtttgaaataccgggagcagcttatcgtggggatcagtac
ctttataataattcgatgaattattttgacttggcaatcgatgaaaatgcactttgggtc
atgtttcactatcaggaagaagctttcttatcagtagctaaagtggatataaataatttg
acaatttatgaggcattcaacctcacgacagtaaatcatacagatgttgcaaatggaatc
gtcgtttgtggaacaatttatttggtggaaagtgcatcagaacaatccacgtatatctct
acggcatacgatttctacagaaacacatactcccaacctttgattaaatggattaatttg
tacaagaacgccaatatgattagctataatgcttatgataagagaatttacatctacgat
catggttatatgctctctgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCATGTCGGAAAAGTCCATCGCC 375 383 73 Antisense
GTCCATCGCCTTCCATATATATTCG 404 477 88 Antisense
TATTTTCAATGCATCTCTTTTCTAT 668 661 129 Antisense
ATACCGGGAGCAGCTTATCGTGGGG 280 9 220 Antisense
TATCGTGGGGATCAGTACCTTTATA 5 649 235 Antisense
GCACTTTGGGTCATGTTTCACTATC 565 315 301 Antisense
GGCATTCAACCTCACGACAGTAAAT 488 535 384 Antisense
ACAATCCACGTATATCTCTACGGCA 2 115 474 Antisense
TCTCTACGGCATACGATTTCTACAG 85 613 488 Antisense
AACACATACTCCCAACCTTTGATTA 140 133 514 Antisense
ACGATCATGGTTATATGCTCTCTGT 697 93 608 Antisense
Sequence Source Affymetrix Proprietary Database