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[180332_at]

Description Y51H4A.9 /REP_DB=WormBase Gene ID /WP=CE22336 /TR=Q9NAE0 /GB=CAB61143.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 50      6grp_cgc > 98      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 8.1
(-2.8)
A 		73.8
(3)
A 		58.3
(1.6)
A 		5.4
(-3)
A 		68
B 8.3
(-2.9)
A 		57.5
(2.9)
A 		58.2
(3)
M 		7.7
(-3)
A 		51
C 27.9
(-1.4)
A 		101.7
(3)
A 		22.2
(-1.8)
A 		1.4
(-3)
A 		100
avr 14.8
(-2.2) 		77.7
(3) 		46.2
(0.4) 		4.8
(-3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 40.5
(-2.9)
A 		56.7
(-1.7)
A 		78.1
(-0)
A 		61.6
(-1.3)
A 		117.1
(3)
P 		39.2
(-3)
A 		78
B 19.3
(-3)
A 		69.8
(1.3)
A 		52.6
(-0.1)
P 		73.5
(1.6)
A 		89.3
(3)
P 		34.8
(-1.7)
A 		70
C 45.1
(-2.3)
A 		68.3
(-1.3)
A 		72.3
(-1.2)
M 		59.8
(-1.7)
A 		169.7
(3)
P 		29.2
(-3)
A 		141
avr 35
(-3) 		64.9
(-1) 		67.7
(-0.8) 		65
(-1) 		125.4
(3) 		34.4
(-3) 		91
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 2.9
(-2.2)
A 		16
(3)
A 		15.3
(2.7)
A 		0.8
(-3)
A 		15
B 2.7
(-2.5)
A 		14.2
(3)
A 		13.5
(2.7)
M 		1.6
(-3)
A 		13
C 9.2
(-1.1)
A 		29.2
(3)
A 		7.7
(-1.4)
A 		0.2
(-3)
A 		29
avr 4.9
(-1.7) 		19.8
(3) 		12.2
(0.6) 		0.9
(-3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 7.5
(-3)
A 		20.2
(-0.3)
A 		17
(-0.9)
A 		15.6
(-1.3)
A 		35.3
(3)
P 		9.5
(-2.6)
A 		28
B 6.7
(-3)
A 		23.2
(0.3)
A 		12.8
(-1.8)
P 		19.5
(-0.4)
A 		36.3
(3)
P 		13
(-1.7)
A 		30
C 16.7
(-2.1)
A 		20.8
(-1.5)
A 		18.4
(-1.9)
M 		12
(-2.7)
A 		54.9
(3)
P 		9.8
(-3)
A 		45
avr 10.3
(-3) 		21.4
(-0.9) 		16.1
(-1.9) 		15.7
(-2) 		42.2
(3) 		10.8
(-2.9) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180332_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9112
Sequence Type Exemplar sequence
Representative Public ID Y51H4A.9 NCBI
Target Description Y51H4A.9 /REP_DB=WormBase Gene ID /WP=CE22336 /TR=Q9NAE0 /GB=CAB61143.1 /SUBMIT=HINXTON /CHR=4 /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_070565(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070565 NCBI Caenorhabditis elegans COLlagen family member (col-137) (col-137) mRNA, complete cds. 11/11 None
SNAP00000000185 ENSEMBL cdna:SNAP chromosome:CEL140:IV:16601444:16602735:-1 11/11 None
GENEFINDER00000000214 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:16601444:16602735:-1 11/11 None
Y51H4A.9 ENSEMBL cdna:known chromosome:CEL140:IV:16601444:16602735:-1 gene:Y51H4A.9 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
chrIV:16601449-16602741(-) 96.01 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-137
Ensembl Y51H4A.9
Entrez Gene 190149 Entrez gene
SwissProt Q9NAE0 EMBL-EBI
WormBase CE22336 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
42302 structural constituent of cuticle inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB61143 Hypothetical protein Y51H4A.9 [Caenorhabditis elegans] ref|NP_502966.1| COLlagen family member (col-137) [Caenorhabditis elegans] 1.0E-119
blast CAE64818 Hypothetical protein CBG09612 [Caenorhabditis briggsae] gb|AAB41793.1| cuticle collagen [Caenorhabditis briggsae] 1.0E-24
blast CAA98257 Hypothetical protein F15H10.1 [Caenorhabditis elegans] ref|NP_505678.1| F15H10.1 [Caenorhabditis elegans] sp|P20630|COL12_CAEEL Cuticle collagen 12 precursor emb|CAA35954.1| collagen [Caenorhabditis elegans] 1.0E-24
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 4.9E-13
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 0.0011
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.0E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502966.1 1 17-39
Y51H4A.9 1 17-39
SNAP00000000185 1 17-39
GENEFINDER00000000214 1 17-39
Sequence
Target Sequence 
>C. ELEGANS:180332_AT
gatggagctcctggaaatgatggatcttctggagcaccgggacatcctggacaagatgct
gtagatgactctcaagctggaccagactcattctgctttgactgcccagctggaccacca
ggaccatccggagctccaggacaaaagggaccttcaggagcaccaggagctccaggacaa
tctggaggatccgctcttccaggaccaccaggaccagctggatcacctggcgatcaggac
aaccaggatccaatggaaacgtcggagctccaggagccccaggacaagtcgttgatgttc
caggagcacctggacctgcaggaccaccaggaccaccaggaccatccggagctccaggac
acccaggacaagctggatcatccctgccaggagccccaggaccacaaggagacgccggag
caccaggacagccaggagctccaggacaacaaggagaaccaggagaggacggagagagtg
gatccgagggagcttgtgatcactgcccaccaccaagaactgctccaggatattgaatgg
aagctctgggagttgttcacttttttgtatagtttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGGAGCTCCTGGAAATGATGGAT 526 407 532 Antisense
GCTGTAGATGACTCTCAAGCTGGAC 342 295 589 Antisense
ATGACTCTCAAGCTGGACCAGACTC 361 45 596 Antisense
GGACCAGACTCATTCTGCTTTGACT 662 521 610 Antisense
ACCAGCTGGATCACCTGGCGATCAG 659 85 744 Antisense
ATCACCTGGCGATCAGGACAACCAG 40 27 753 Antisense
GATCCAATGGAAACGTCGGAGCTCC 568 413 778 Antisense
AAGTCGTTGATGTTCCAGGAGCACC 588 157 817 Antisense
CAGGACAAGCTGGATCATCCCTGCC 208 209 895 Antisense
GGAAGCTCTGGGAGTTGTTCACTTT 46 531 1070 Antisense
TGTTCACTTTTTTGTATAGTTTCTT 102 563 1085 Antisense
Sequence Source Affymetrix Proprietary Database