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[190023_at] collagen

Description ZK863.2 /REP_DB=WormBase Gene ID /WP=CE15437 /GEN=col-37 /TR=Q23649 /GB=CAB01457.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=collagen
Cluster 6grp_total > 93      4grp_total > 33      6grp_cgc > 88      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 90
1 2 3 4 range
A 5.5
(-3)
A 		48.6
(0.2)
A 		70.3
(1.8)
A 		86.2
(3)
A 		81
B 11.9
(-3)
A 		64.3
(0.8)
A 		85.9
(2.3)
A 		95.2
(3)
A 		83
C 52.5
(0.8)
A 		70.8
(3)
A 		54.6
(1.1)
P 		19.9
(-3)
A 		51
avr 23.3
(-3) 		61.2
(1.8) 		70.3
(3) 		67.1
(2.6) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18270
1 2 3 4 5 6 range
A 10.6
(-3)
A 		25.6
(-3)
A 		70.8
(-3)
M 		8520.7
(1.3)
P 		11976.3
(3)
P 		2248.4
(-1.9)
P 		11966
B 47.2
(-3)
A 		74.9
(-3)
P 		71.7
(-3)
A 		6890.4
(0.5)
P 		11767.4
(3)
P 		2635.1
(-1.7)
P 		11720
C 17.9
(-3)
A 		40.1
(-3)
A 		180.8
(-2.9)
A 		5664.6
(-1.1)
P 		18280.7
(3)
P 		2067.4
(-2.3)
P 		18263
avr 25.2
(-3) 		46.9
(-3) 		107.8
(-3) 		7025.2
(0) 		14008.1
(3) 		2317
(-2) 		13983
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 2
(-3)
A 		10.5
(0.1)
A 		18.4
(3)
A 		12.6
(0.9)
A 		16
B 3.8
(-3)
A 		15.9
(1.4)
A 		19.9
(2.9)
A 		20.3
(3)
A 		17
C 17.4
(2)
A 		20.3
(3)
A 		19
(2.5)
P 		3.4
(-3)
A 		17
avr 7.7
(-3) 		15.6
(1.2) 		19.1
(3) 		12.1
(-0.7) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5913
1 2 3 4 5 6 range
A 2
(-3)
A 		9.1
(-3)
A 		15.4
(-3)
M 		2161.1
(0.6)
P 		3613.9
(3)
P 		547.4
(-2.1)
P 		3612
B 16.4
(-3)
A 		24.9
(-3)
P 		17.4
(-3)
A 		1825
(-0.7)
P 		4781
(3)
P 		982.6
(-1.8)
P 		4765
C 6.6
(-3)
A 		12.2
(-3)
A 		46
(-3)
A 		1139.2
(-1.8)
P 		5915.4
(3)
P 		692.1
(-2.3)
P 		5909
avr 8.3
(-3) 		15.4
(-3) 		26.3
(-3) 		1708.4
(-0.9) 		4770.1
(3) 		740.7
(-2.1) 		4762
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190023_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13248
Sequence Type Exemplar sequence
Representative Public ID ZK863.2 NCBI
Target Description ZK863.2 /REP_DB=WormBase Gene ID /WP=CE15437 /GEN=col-37 /TR=Q23649 /GB=CAB01457.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=collagen
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_073652(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073652 NCBI Caenorhabditis elegans ZK863.2 (collagen) mRNA, complete cds. 11/11 None
ZK863.2 ENSEMBL cdna:known chromosome:CEL140:V:12169294:12170341:-1 gene:ZK863.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039737 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12169293-12170341(-) 94.86 100.0
Public Domain and Genome References
Gene Title collagen
Gene Symbol col-37
Ensembl ZK863.2
Entrez Gene 179668 Entrez gene
SwissProt Q23649 EMBL-EBI
WormBase CE15437 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
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 CAB01457 Hypothetical protein ZK863.2 [Caenorhabditis elegans] emb|CAB09131.1| Hypothetical protein ZK863.2 [Caenorhabditis elegans] ref|NP_506053.1| ZK863.2 [Caenorhabditis elegans] 3.0E-33
blast CAE75407 Hypothetical protein CBG23397 [Caenorhabditis briggsae] 4.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 1.1E-21
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.0E-13
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 6.4E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506053.1 1 7-29
ZK863.2 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:190023_AT
gatggtgaagcgggatccccaggaactcgctctatcagctctccaggaccagccggacca
gccggaccaccaggaccaccaggaccagacggagctccaggaggaggaagcggaccagga
ccagctggaccagccggaccaccaggaccagacggaaacccaggatctgctggagctgat
ggtcaaccaggaggaccaggacaagacggtgcaccaggaagcgatgccgcatactgccca
tgcccaccaagaagcggagctatcgcaggaggaggaggaggtggagatgccggagtttcc
ggaggaagcgactctgctgttggaggaggaggcgataccaacgcaagcaccgattctcaa
actaatcgatggacaaaacatttccaaagattgaggaaacattcatcaaaaactttgcca
tttagttttagcatcatttatttgatgggaaataaacattttcatttggcattcacagta
t

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGGTGAAGCGGGATCCCCAGGAA 170 409 481 Antisense
AGGAGGAGGAAGCGGACCAGGACCA 500 53 579 Antisense
CCAGGAAGCGATGCCGCATACTGCC 20 273 694 Antisense
ATGCCCACCAAGAAGCGGAGCTATC 121 41 720 Antisense
GGAGGTGGAGATGCCGGAGTTTCCG 411 515 757 Antisense
GAGTTTCCGGAGGAAGCGACTCTGC 108 399 773 Antisense
GAAGCGACTCTGCTGTTGGAGGAGG 40 343 785 Antisense
AGGAGGCGATACCAACGCAAGCACC 167 55 807 Antisense
CGCAAGCACCGATTCTCAAACTAAT 305 253 822 Antisense
GCCATTTAGTTTTAGCATCATTTAT 241 281 897 Antisense
CATTTTCATTTGGCATTCACAGTAT 546 215 937 Antisense
Sequence Source Affymetrix Proprietary Database