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[192967_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 > 39      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      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7555
1 2 3 4 range
A 30.8
(-3)
M 		7557.8
(3)
P 		6767.5
(2.4)
P 		19
(-3)
A 		7539
B 26.5
(-3)
A 		5850.3
(2.2)
P 		6733.4
(3)
P 		2.9
(-3)
A 		6731
C 32.5
(-3)
A 		5730.2
(1.8)
P 		7150.9
(3)
P 		43.9
(-3)
A 		7118
avr 29.9
(-3) 		6379.4
(2.6) 		6883.9
(3) 		21.9
(-3) 		6862

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16952
1 2 3 4 5 6 range
A 520.7
(-3)
P 		3670.1
(-1.6)
P 		3186.4
(-1.8)
P 		13966.4
(3)
P 		12170.2
(2.2)
P 		3446.9
(-1.7)
P 		13446
B 509.5
(-3)
P 		3867.1
(-1.5)
P 		3020.2
(-1.9)
P 		13207
(2.6)
P 		14228.6
(3)
P 		4323.2
(-1.3)
P 		13719
C 726.7
(-3)
P 		3703.1
(-1.9)
P 		2935.3
(-2.2)
P 		12141
(1.1)
P 		17461.1
(3)
P 		3234.2
(-2.1)
P 		16734
avr 585.6
(-3) 		3746.8
(-1.6) 		3047.3
(-1.9) 		13104.8
(2.4) 		14620
(3) 		3668.1
(-1.7) 		14034
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2492
1 2 3 4 range
A 11.2
(-3)
M 		1640.6
(2.6)
P 		1769.2
(3)
P 		2.8
(-3)
A 		1766
B 8.4
(-3)
A 		1444.9
(2.6)
P 		1560.3
(3)
P 		0.6
(-3)
A 		1560
C 10.8
(-3)
A 		1647.5
(1)
P 		2492.3
(3)
P 		7.4
(-3)
A 		2485
avr 10.1
(-3) 		1577.7
(1.9) 		1940.6
(3) 		3.6
(-3) 		1937

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5685
1 2 3 4 5 6 range
A 96
(-3)
P 		1305.3
(-1)
P 		693.9
(-2)
P 		3542.2
(2.8)
P 		3672.4
(3)
P 		839.2
(-1.8)
P 		3576
B 177.3
(-3)
P 		1287.2
(-1.8)
P 		733.4
(-2.4)
P 		3498.1
(0.6)
P 		5780.9
(3)
P 		1612.1
(-1.5)
P 		5604
C 269.4
(-3)
P 		1129.9
(-2)
P 		747.1
(-2.5)
P 		2441.6
(-0.6)
P 		5650.2
(3)
P 		1082.7
(-2.1)
P 		5381
avr 180.9
(-3) 		1240.8
(-1.7) 		724.8
(-2.3) 		3160.6
(0.7) 		5034.5
(3) 		1178
(-1.8) 		4854
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192967_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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_182112, NM_063181
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. None
NM_182112 NCBI Caenorhabditis elegans ROLler: helically twisted, animals roll when moving family member (rol-8) (rol-8) mRNA, complete cds. None
SNAP00000002676 ENSEMBL cdna:SNAP chromosome:CEL140:II:7544057:7545182:1 None
ZK1290.3a ENSEMBL cdna:known chromosome:CEL140:II:7544030:7545258:1 gene:ZK1290.3 A 
ZK1290.3b ENSEMBL cdna:known chromosome:CEL140:II:7544057:7545213:1 gene:ZK1290.3 None
GENEFINDER00000002691 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7544057:7545182:1 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: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
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
NP_871912.1 1 16-38
ZK1290.3a 1 16-38
ZK1290.3b 1 16-38
SNAP00000002676 1 16-38
GENEFINDER00000002691 1 16-38
Sequence
Target Sequence 
>C. ELEGANS:192967_AT
ggaccaatgggagctatgggaccaaagggaccaccaggaccaaagggatctccaggagag
ccaccacaagacggaaagtctggagacgatggtatggctggacaaccaggaccaattgga
agaccaggacgcgacggaatgaagggagcgccaggagccgctggacgcctcattccggtg
ccaggaccacaaggagcaccaggaaagccaggaccaatcggaccaccaggaccgaaagga
aacccaggaccagacgggcaatcctaccaaggaccaccaggaccaccaggagactcagga
actccaggacacgaaggtcgcgccggaccaaatggaccagctggaccaccaggagacaat
ggagagaagggagactgtggacattgcccacgtaagcttccttttacatttttcaaaatc
tataaattctgttgttttcagcaccgcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACCAATGGGAGCTATGGGACCAA 478 521 586 Antisense
TGGGAGCTATGGGACCAAAGGGACC 27 555 593 Antisense
AGAGCCACCACAAGACGGAAAGTCT 211 71 642 Antisense
AAGTCTGGAGACGATGGTATGGCTG 299 157 661 Antisense
GGAGACGATGGTATGGCTGGACAAC 700 517 667 Antisense
ACGATGGTATGGCTGGACAACCAGG 448 89 671 Antisense
ATTGGAAGACCAGGACGCGACGGAA 214 3 700 Antisense
GGAAGACCAGGACGCGACGGAATGA 373 529 703 Antisense
GTGGACATTGCCCACGTAAGCTTCC 322 491 962 Antisense
AAATCTATAAATTCTGTTGTTTTCA 14 119 1001 Antisense
AATTCTGTTGTTTTCAGCACCGCGT 581 177 1010 Antisense
Sequence Source Affymetrix Proprietary Database