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[192968_s_at]

Description ZK1290.3 /REP_DB=WormBase Gene ID /WP=CE01448 /GEN=rol-8 /TR=Q23437 /GB=AAB93312.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Cutical collagen 6, col-6
Cluster 6grp_highest_10_10 > 29      6grp_high1_10_10 > 92      6grp_highest_nonorm > 29      6grp_total > 83      4grp_total > 49      6grp_highest_sub > 04_05      6grp_cgc > 87      6grp_high1_sub > 04_05      6grp_cgc_sub > 05      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17548
1 2 3 4 range
A 132.2
(-3)
A 		14648.2
(2.3)
P 		16667.8
(3)
P 		145.2
(-3)
A 		16536
B 154
(-3)
P 		13215.3
(1.5)
P 		17658.6
(3)
P 		127
(-3)
A 		17532
C 110.4
(-3)
A 		13197.1
(2.5)
P 		14496.5
(3)
P 		180.9
(-3)
A 		14386
avr 132.2
(-3) 		13686.9
(2) 		16274.3
(3) 		151
(-3) 		16142

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22669
1 2 3 4 5 6 range
A 2056
(-3)
P 		7696.3
(-1.4)
P 		7061.4
(-1.6)
P 		23517
(3)
P 		23119.8
(2.9)
P 		8329.7
(-1.2)
P 		21461
B 1475.2
(-3)
P 		6932.7
(-1.5)
P 		8186.3
(-1.2)
P 		23405
(3)
P 		20836.6
(2.3)
P 		8994.5
(-0.9)
P 		21930
C 1306.6
(-3)
P 		7933
(-1.2)
P 		7092.4
(-1.5)
P 		21565.6
(2.4)
P 		23975.9
(3)
P 		7056.4
(-1.5)
P 		22669
avr 1612.6
(-3) 		7520.7
(-1.3) 		7446.7
(-1.4) 		22829.2
(3) 		22644.1
(2.9) 		8126.9
(-1.2) 		21217
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5031
1 2 3 4 range
A 48.1
(-3)
A 		3179.7
(1.4)
P 		4357.3
(3)
P 		21.2
(-3)
A 		4336
B 49.1
(-3)
P 		3263.9
(1.8)
P 		4091.9
(3)
P 		27.1
(-3)
A 		4065
C 36.6
(-3)
A 		3794.2
(1.5)
P 		5052.5
(3)
P 		30.5
(-3)
A 		5022
avr 44.6
(-3) 		3412.6
(1.5) 		4500.6
(3) 		26.3
(-3) 		4474

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8087
1 2 3 4 5 6 range
A 379
(-3)
P 		2737.2
(-0.9)
P 		1537.8
(-1.9)
P 		5964.5
(2.1)
P 		6976.6
(3)
P 		2028
(-1.5)
P 		6598
B 513.3
(-3)
P 		2307.6
(-1.6)
P 		1987.9
(-1.9)
P 		6199.2
(1.3)
P 		8465.6
(3)
P 		3354
(-0.9)
P 		7952
C 484.3
(-3)
P 		2420.6
(-1.4)
P 		1805.1
(-1.9)
P 		4336.9
(0.2)
P 		7758.3
(3)
P 		2362.2
(-1.5)
P 		7274
avr 458.9
(-3) 		2488.5
(-1.3) 		1776.9
(-1.9) 		5500.2
(1.2) 		7733.5
(3) 		2581.4
(-1.2) 		7275
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192968_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5461
Sequence Type Exemplar sequence
Representative Public ID ZK1290.3 NCBI
Target Description ZK1290.3 /REP_DB=WormBase Gene ID /WP=CE01448 /GEN=rol-8 /TR=Q23437 /GB=AAB93312.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Cutical collagen 6, col-6
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_063181(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063181 NCBI Caenorhabditis elegans ROLler: helically twisted, animals roll when moving family member (rol-8) (rol-8) mRNA, complete cds. 11/11 B 
ZK1290.3a ENSEMBL cdna:known chromosome:CEL140:II:7544030:7545258:1 gene:ZK1290.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182112 8/11 Cross Hyb Matching Probes B 
SNAP00000002676 8/11 Cross Hyb Matching Probes None
GENEFINDER00000002691 8/11 Cross Hyb Matching Probes None
ZK1290.3b 8/11 Cross Hyb Matching Probes B 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
174226 2 1 NM_063181 192968_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7544053-7545303(+) 100.0 100.0
Public Domain and Genome References
Ensembl ZK1290.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN65281 Roller: helically twisted, animals roll when moving protein 8, isoform a [Caenorhabditis elegans] ref|NP_495582.1| ROLler: helically twisted, animals roll when moving family member (rol-8) [Caenorhabditis elegans] sp|P18831|COL6_CAEEL Roller protein 8 (Cuticle collagen 6) 5.0E-72
blast AAA27991 collagen 2.0E-71
blast CAE67485 Hypothetical protein CBG12990 [Caenorhabditis briggsae] 3.0E-66
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 2.0E-21
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.1E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.1E-8
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.6E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495582.1 1 16-38
ZK1290.3a 1 16-38
Sequence
Target Sequence 
>C. ELEGANS:192968_S_AT
cggaatgaagggagcgccaggagccgctggacgcctcattccggtgccaggaccacaagg
agcaccaggaaagccaggaccaatcggaccaccaggaccgaaaggaaacccaggaccaga
cgggcaatcctaccaaggaccaccaggaccaccaggagactcaggaactccaggacacga
aggtcgcgccggaccaaatggaccagctggaccaccaggagacaatggagagaagggaga
ctgtggacattgcccacgtaagcttccttttacatttttcaaaatctataaattctgttg
ttttcagcaccgcgtaccccaccaggctactaatcaccatccacttcatgatcaatttcg
cccgtttcgggtgtct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGAATGAAGGGAGCGCCAGGAGCC 272 243 720 Antisense
GAAACCCAGGACCAGACGGGCAATC 276 359 824 Antisense
CCAGACGGGCAATCCTACCAAGGAC 296 271 835 Antisense
GACCACCAGGAGACTCAGGAACTCC 8 385 866 Antisense
CCAGGAGACTCAGGAACTCCAGGAC 488 271 871 Antisense
GAACTCCAGGACACGAAGGTCGCGC 198 349 884 Antisense
GAAGGTCGCGCCGGACCAAATGGAC 21 333 898 Antisense
GAAGGGAGACTGTGGACATTGCCCA 543 331 951 Antisense
TCACCATCCACTTCATGATCAATTT 17 627 1053 Antisense
CCACTTCATGATCAATTTCGCCCGT 341 271 1060 Antisense
TCAATTTCGCCCGTTTCGGGTGTCT 413 633 1071 Antisense
Sequence Source Affymetrix Proprietary Database