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[185993_at]

Description ZK1248.2 /REP_DB=WormBase Gene ID /WP=CE02902 /TR=Q23422 /GB=AAC71083.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 48      4grp_total > 02      6grp_cgc > 07      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 3.7
(-3)
A 		9.9
(-2.4)
A 		4.6
(-2.9)
A 		69.7
(3)
A 		66
B 3.3
(-3)
A 		6
(-2.8)
A 		3.3
(-3)
A 		83.3
(3)
P 		80
C 5.6
(-3)
A 		9.1
(-2.7)
A 		18.2
(-1.9)
A 		72.1
(3)
P 		67
avr 4.2
(-3) 		8.3
(-2.7) 		8.7
(-2.6) 		75
(3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 315
1 2 3 4 5 6 range
A 297
(3)
P 		26.5
(-2.7)
A 		11.7
(-3)
A 		10.3
(-3)
A 		15.9
(-2.9)
A 		294.5
(2.9)
P 		287
B 267
(2.9)
P 		5.3
(-3)
A 		32.7
(-2.4)
A 		13.4
(-2.8)
A 		10.7
(-2.9)
A 		269.2
(3)
P 		264
C 319.2
(3)
P 		5.6
(-3)
A 		22.8
(-2.6)
A 		3.9
(-3)
A 		14.2
(-2.8)
A 		224.5
(1.2)
P 		315
avr 294.4
(3) 		12.5
(-2.9) 		22.4
(-2.7) 		9.2
(-3) 		13.6
(-2.9) 		262.7
(2.3) 		285
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 1.4
(-2.9)
A 		2.1
(-2.4)
A 		1.2
(-3)
A 		10.2
(3)
A 		9
B 1
(-2.9)
A 		1.5
(-2.8)
A 		0.8
(-3)
A 		17.8
(3)
P 		17
C 1.9
(-3)
A 		2.6
(-2.6)
A 		6.4
(-0.4)
A 		12.2
(3)
P 		10
avr 1.4
(-3) 		2.1
(-2.7) 		2.8
(-2.3) 		13.4
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 54.8
(1.5)
P 		9.4
(-2.4)
A 		2.5
(-3)
A 		2.6
(-3)
A 		4.8
(-2.8)
A 		71.7
(3)
P 		69
B 92.9
(2.5)
P 		1.8
(-3)
A 		7.9
(-2.6)
A 		3.6
(-2.9)
A 		4.3
(-2.8)
A 		100.4
(3)
P 		99
C 118.3
(3)
P 		1.7
(-3)
A 		5.8
(-2.7)
A 		0.8
(-3)
A 		4.6
(-2.8)
A 		75.2
(0.8)
P 		118
avr 88.7
(3) 		4.3
(-2.9) 		5.4
(-2.8) 		2.3
(-3) 		4.6
(-2.8) 		82.4
(2.6) 		86
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185993_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5245
Sequence Type Exemplar sequence
Representative Public ID ZK1248.2 NCBI
Target Description ZK1248.2 /REP_DB=WormBase Gene ID /WP=CE02902 /TR=Q23422 /GB=AAC71083.1 /SUBMIT=ST.LOUIS /CHR=2 /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_062758(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062758 NCBI Caenorhabditis elegans COLlagen family member (col-74) (col-74) mRNA, complete cds. 11/11 None
SNAP00000041379 ENSEMBL cdna:SNAP chromosome:CEL140:II:5830835:5831896:1 11/11 None
GENEFINDER00000041388 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5830850:5831896:1 11/11 None
ZK1248.2 ENSEMBL cdna:known chromosome:CEL140:II:5830853:5831979:1 gene:ZK1248.2 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
chrII:5830960-5831893(+) 92.92 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-74
Ensembl ZK1248.2
Entrez Gene 173989 Entrez gene
SwissProt Q23422 EMBL-EBI
WormBase CE02902 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6817 phosphate transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAE59201 Hypothetical protein CBG02512 [Caenorhabditis briggsae] 3.0E-79
blast AAC71083 Collagen protein 74 [Caenorhabditis elegans] ref|NP_495159.1| COLlagen family member (col-74) [Caenorhabditis elegans] 2.0E-70
blast CAE59201 Hypothetical protein CBG02512 [Caenorhabditis briggsae] 2.0E-64
blast AAK84534 Dumpy : shorter than wild-type protein 17 [Caenorhabditis elegans] ref|NP_498086.1| DumPY : shorter than wild-type family member (dpy-17) [Caenorhabditis elegans] 6.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 3.0E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.0E-7
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.7E-13
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 3.0E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.0E-7
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.7E-13
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 3.0E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.0E-7
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.7E-13
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000041379 1 12-34
GENEFINDER00000041388 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:185993_AT
tgccaggctgacaattcgtgcccagctggaccagctggaccaaagggagctcaaggatct
gacggaatcgacggaattccaggagtgccaggaatcgatggacaggatgctgacgatgct
caagctcaaactcaacaatatgcaggatgcttcacttgcccacagggaccacaaggacca
caaggaccacaaggaaagccaggagttcgtggaatgcgtggagctcgcggacaaggagcc
atgccaggacgtgacggaactccaggacagccaggaagcctcggaccagtcggaccagtc
ggaccacaaggagaaccaggatcagaaggagaaccaggagctgatgtcgaacatcaagtc
ggacttccaggaccaaagggaatttctggaccaactggacaaccaggagatcaaggacca
caaggagataccggagctcaaggtattccaggagcaccaggagagcgtggaccacgtgga
gacaagggagataatggagagaacggttctgctggagcaccaggagaggagggagagcca
ggaactgatgccgaatattgtccatgtcctcaaagacaggaaagtgcaccagtcaatgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCAGGCTGACAATTCGTGCCCAG 235 587 259 Antisense
GGGAGCTCAAGGATCTGACGGAATC 281 495 303 Antisense
GGAGTGCCAGGAATCGATGGACAGG 489 517 340 Antisense
AGGATGCTGACGATGCTCAAGCTCA 706 55 362 Antisense
TCAAGCTCAAACTCAACAATATGCA 701 631 378 Antisense
ACAATATGCAGGATGCTTCACTTGC 595 113 393 Antisense
AATGCGTGGAGCTCGCGGACAAGGA 302 167 471 Antisense
TCGCGGACAAGGAGCCATGCCAGGA 110 585 483 Antisense
CAAGGAGCCATGCCAGGACGTGACG 476 183 490 Antisense
ATTGTCCATGTCCTCAAAGACAGGA 596 3 815 Antisense
ACAGGAAAGTGCACCAGTCAATGGA 629 107 834 Antisense
Sequence Source Affymetrix Proprietary Database