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[186657_at]

Description C36B1.1 /REP_DB=WormBase Gene ID /WP=CE28209 /GB=CAC42298.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=collagen
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 13      6grp_highest_nonorm > 90      6grp_total > 22      4grp_total > 54      6grp_highest_sub > De      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 191
1 2 3 4 range
A 287.7
(3)
P 		127.6
(-2)
P 		176.6
(-0.5)
P 		96.9
(-3)
A 		191
B 161.9
(1.6)
P 		178.8
(3)
P 		137.9
(-0.4)
P 		106.7
(-3)
A 		72
C 232.4
(3)
P 		170.1
(-0.3)
P 		167.3
(-0.5)
P 		120
(-3)
M 		112
avr 227.3
(3) 		158.8
(-0.4) 		160.6
(-0.4) 		107.9
(-3) 		119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 210
1 2 3 4 5 6 range
A 162.3
(-0.9)
P 		284.1
(3)
P 		189.6
(0)
P 		132.9
(-1.8)
P 		111.2
(-2.5)
P 		94.6
(-3)
P 		190
B 175.8
(3)
P 		113.2
(-2.3)
P 		113.9
(-2.2)
P 		107.5
(-2.8)
P 		112.5
(-2.4)
P 		105
(-3)
P 		71
C 206.4
(3)
P 		179.8
(1.8)
P 		185
(2)
P 		146.3
(0.3)
P 		124.8
(-0.7)
P 		73.9
(-3)
P 		133
avr 181.5
(2.4) 		192.4
(3) 		162.8
(1.2) 		128.9
(-0.8) 		116.2
(-1.5) 		91.2
(-3) 		101
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 104.7
(3)
P 		27.7
(-2.1)
P 		46.2
(-0.9)
P 		14.2
(-3)
A 		91
B 51.6
(3)
P 		44.2
(1.5)
P 		31.9
(-1.1)
P 		22.7
(-3)
A 		29
C 76.9
(3)
P 		48.9
(0)
P 		58.3
(1)
P 		20.2
(-3)
M 		57
avr 77.7
(3) 		40.3
(-0.8) 		45.5
(-0.3) 		19
(-3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 29.9
(-2.5)
P 		101
(3)
P 		41.3
(-1.6)
P 		33.7
(-2.2)
P 		33.6
(-2.2)
P 		23
(-3)
P 		78
B 61.2
(3)
P 		37.7
(-1.2)
P 		27.7
(-3)
P 		28.5
(-2.9)
P 		45.7
(0.2)
P 		39.2
(-0.9)
P 		34
C 76.5
(3)
P 		54.9
(0.5)
P 		47.1
(-0.4)
P 		29.4
(-2.5)
P 		40.4
(-1.2)
P 		24.8
(-3)
P 		52
avr 55.9
(1.5) 		64.5
(3) 		38.7
(-1.4) 		30.5
(-2.7) 		39.9
(-1.2) 		29
(-3) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186657_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1404
Sequence Type Exemplar sequence
Representative Public ID C36B1.1 NCBI
Target Description C36B1.1 /REP_DB=WormBase Gene ID /WP=CE28209 /GB=CAC42298.1 /SUBMIT=HINXTON /CHR=1 /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_170904(9), NM_059957(9), NM_170905(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170904 NCBI Caenorhabditis elegans CoLlagen with Endostatin domain family member (cle-1) (cle-1) mRNA, complete cds. 9/11 A 
NM_059957 NCBI Caenorhabditis elegans CoLlagen with Endostatin domain family member (cle-1) (cle-1) mRNA, complete cds. 9/11 A 
NM_170905 NCBI Caenorhabditis elegans CoLlagen with Endostatin domain family member (cle-1) (cle-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000022513 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8721860:8732404:-1 9/11 None
SNAP00000022499 ENSEMBL cdna:SNAP chromosome:CEL140:I:8722094:8723046:-1 9/11 None
C36B1.1b ENSEMBL cdna:known chromosome:CEL140:I:8714111:8727491:-1 gene:C36B1.1 11/11 A 
C36B1.1a ENSEMBL cdna:known chromosome:CEL140:I:8714111:8732404:-1 gene:C36B1.1 9/11 A 
C36B1.1d ENSEMBL cdna:known chromosome:CEL140:I:8714111:8732404:-1 gene:C36B1.1 9/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
172678 4 3 NM_059957 186657_at (9), 191302_at (11)
NM_170904 186657_at (9), 191302_at (11)
NM_170905 186657_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:8721997-8727422(-) 100.0 100.0
Public Domain and Genome References
Ensembl C36B1.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD21701 Hypothetical protein C36B1.1a [Caenorhabditis elegans] emb|CAD21644.2| Hypothetical protein C36B1.1a [Caenorhabditis elegans] ref|NP_740896.2| CoLlagen with Endostatin domain family member (cle-1) [Caenorhabditis elegans] 0.0
blast CAD56563 Hypothetical protein C36B1.1d [Caenorhabditis elegans] emb|CAD56581.2| Hypothetical protein C36B1.1d [Caenorhabditis elegans] ref|NP_492358.3| CoLlagen with Endostatin domain family member (cle-1) [Caenorhabditis elegans] 0.0
blast AAD47823 CLE-1A protein [Caenorhabditis elegans] 0.0
blast CAD21700 Hypothetical protein C36B1.1b [Caenorhabditis elegans] emb|CAD21643.1| Hypothetical protein C36B1.1b [Caenorhabditis elegans] ref|NP_740897.1| CoLlagen with Endostatin domain family member (cle-1) [Caenorhabditis elegans] gb|AAD47824.1| CLE-1B protein [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.2E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.0E-6
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.2E-12
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 9.0E-7
Pfam IPR010515 EMBL-EBI Collagenase NC10 and endostatin 1.0E-126
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.2E-12
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 9.0E-7
Pfam IPR010515 EMBL-EBI Collagenase NC10 and endostatin 1.0E-126
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.2E-12
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 9.0E-7
Pfam IPR010515 EMBL-EBI Collagenase NC10 and endostatin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:186657_AT
tacattctttgctcttaacgcgcttccaggagattctgaaacggaagtagatttattggc
tccagttaaagcatctttaaatgcagacgcacgggtttttagagccaaaggaattgaatc
tttgccagcaatcgggttacagagaggtgttgaaattgcagtcccttatcgattatattt
gccacgaaattttttcaaacaattttctctacttgccactatcaagccaatggataaacg
aggtggttatctatttgctgcagttaatgcatatgattcagcagttgatattggattgct
tattgaaccagcaggaacaaagcaaacgaatatttcactgatagttcgttctgtggcaat
tgtatcgtttcttgtcgaagatttctctcagcaatggacacaatttgcattagaagttgt
agatcaaactgtcacattttacttcaaatgcagacgttttgcatcaagacaggttacctc
tctccctgatttctcatttgatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACATTCTTTGCTCTTAACGCGCTT 418 645 96 Antisense
TAACGCGCTTCCAGGAGATTCTGAA 655 637 111 Antisense
GCAGACGCACGGGTTTTTAGAGCCA 643 311 178 Antisense
GGTGTTGAAATTGCAGTCCCTTATC 518 497 241 Antisense
TTCTCTACTTGCCACTATCAAGCCA 371 691 300 Antisense
GAGGTGGTTATCTATTTGCTGCAGT 568 401 335 Antisense
CTGATAGTTCGTTCTGTGGCAATTG 37 227 433 Antisense
GTGGCAATTGTATCGTTTCTTGTCG 516 491 448 Antisense
TCTTGTCGAAGATTTCTCTCAGCAA 542 617 465 Antisense
TCAAGACAGGTTACCTCTCTCCCTG 211 631 559 Antisense
TCTCTCCCTGATTTCTCATTTGATG 31 613 574 Antisense
Sequence Source Affymetrix Proprietary Database