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[192283_s_at] collagen-like repeats

Description E03G2.3 /REP_DB=WormBase Gene ID /WP=CE03120 /CHR=X /FEA=Sanger Annotation /DEF=locus:mec-5 collagen-like repeats (HINXTON) TR:Q19049 protein_id:CAA92149.1
Cluster 6grp_total > 13      4grp_total > 59      6grp_cgc > 42      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 823
1 2 3 4 range
A 580.1
(1)
P 		829.1
(3)
A 		795.4
(2.7)
A 		66.7
(-3)
A 		762
B 704
(2.4)
P 		734.5
(2.7)
A 		765.5
(3)
A 		135.1
(-3)
A 		630
C 617
(1.1)
P 		833.2
(2.7)
A 		880.5
(3)
A 		57.8
(-3)
A 		823
avr 633.7
(1.5) 		798.9
(2.9) 		813.8
(3) 		86.5
(-3) 		727

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 570
1 2 3 4 5 6 range
A 487
(2.5)
A 		510.5
(3)
A 		411.4
(1.1)
A 		462.3
(2.1)
A 		292
(-1.2)
A 		199
(-3)
A 		312
B 500.4
(1.7)
A 		574.1
(3)
A 		398.3
(-0.1)
A 		339.7
(-1.1)
A 		322.5
(-1.5)
A 		235.2
(-3)
A 		339
C 673.5
(3)
A 		634.9
(2.6)
A 		555.4
(1.8)
A 		275.2
(-1.2)
A 		428.7
(0.4)
A 		103.7
(-3)
A 		570
avr 553.6
(2.7) 		573.2
(3) 		455
(1.2) 		359.1
(-0.3) 		347.7
(-0.4) 		179.3
(-3) 		394
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 297
1 2 3 4 range
A 211.2
(3)
P 		180
(2.1)
A 		207.9
(2.9)
A 		9.8
(-3)
A 		201
B 224.5
(3)
P 		181.4
(1.7)
A 		177.4
(1.6)
A 		28.8
(-3)
A 		196
C 204.2
(0.9)
P 		239.5
(1.6)
A 		306.9
(3)
A 		9.7
(-3)
A 		297
avr 213.3
(2.5) 		200.3
(2.2) 		230.7
(3) 		16.1
(-3) 		215

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 215
1 2 3 4 5 6 range
A 89.8
(-1.1)
A 		181.6
(3)
A 		89.6
(-1.1)
A 		117.3
(0.1)
A 		88.1
(-1.2)
A 		48.4
(-3)
A 		133
B 174.1
(2)
A 		191.1
(3)
A 		96.7
(-2.5)
A 		90
(-2.9)
A 		131
(-0.5)
A 		87.7
(-3)
A 		103
C 249.6
(3)
A 		193.7
(1.4)
A 		141.4
(-0)
A 		55.3
(-2.4)
A 		138.7
(-0.1)
A 		34.7
(-3)
A 		215
avr 171.2
(2.2) 		188.8
(3) 		109.2
(-0.6) 		87.5
(-1.6) 		119.3
(-0.2) 		56.9
(-3) 		132
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192283_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17320
Sequence Type Exemplar sequence
Representative Public ID E03G2.3 NCBI
Target Description E03G2.3 /REP_DB=WormBase Gene ID /WP=CE03120 /CHR=X /FEA=Sanger Annotation /DEF=locus:mec-5 collagen-like repeats (HINXTON) TR:Q19049 protein_id:CAA92149.1
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_171808(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171808 NCBI Caenorhabditis elegans MEChanosensory abnormality family member (mec-5) (mec-5) mRNA, complete cds. 9/11 A 
SNAP00000041428 ENSEMBL cdna:SNAP chromosome:CEL140:X:15943928:15948727:1 10/11 None
GENEFINDER00000041433 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15943928:15948727:1 10/11 None
E03G2.3 ENSEMBL cdna:known chromosome:CEL140:X:15943925:15948869:1 gene:E03G2.3 9/11 A 
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
chrX:15943927-15948727(+) 99.88 99.88
Public Domain and Genome References
Gene Title collagen-like repeats
Gene Symbol mec-5
Ensembl E03G2.3
Entrez Gene 181678 Entrez gene
SwissProt Q27276 EMBL-EBI
WormBase CE31464 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
5578 extracellular matrix (sensu Metazoa) inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5201 extracellular matrix structural constituent inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92149 Hypothetical protein E03G2.3 [Caenorhabditis elegans] ref|NP_741941.1| MEChanosensory abnormality family member (mec-5) [Caenorhabditis elegans] gb|AAA96505.1| MEC-5 precursor gb|AAA96504.1| MEC-5 1.0E-151
blast CAE69721 Hypothetical protein CBG15992 [Caenorhabditis briggsae] 1.0E-139
blast CAE69974 Hypothetical protein CBG16372 [Caenorhabditis briggsae] 1.0E-35
Protein Domains
Database ID Description E-Value
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 6.9E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 6.7E-11
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.0E-11
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 6.8E-13
Sequence
Target Sequence 
>C. ELEGANS:192283_S_AT
gaaactctggaattcctggactcaagggagacaccggtatacctggaaaggttggcgaac
cctggatcaactgggcagcccggctcgaaaggagaaaagggaatggaaggactcccagga
accaacggtctgcccggtgctcctggatggccaggcagtaagggtgaagatggacttccg
ggaagaccagggtcgccgggattccctggaaagaagggagacgttggaaatggaggagtc
ccaggagtgcctggtatgattggagaacgaggattgcccggagcaccgggagcacaggga
atgatgggaccaattggaccacccggacaacttggactcccaggaccgaaggtgatcttg
gatctgctggacttccaggaagcaaaggagaaatgggaaaggatggaattccaggtcttc
caggcgcatgttgacaattatcgcttcggcgactattcactggtcaagtcatccggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACTCTGGAATTCCTGGACTCAA 322 357 307 Antisense
GCGAACCCTGGATCAACTGGGCAGC 478 289 361 Antisense
CGGTGCTCCTGGATGGCCAGGCAGT 295 243 441 Antisense
AATGGAGGAGTCCCAGGAGTGCCTG 708 161 535 Antisense
TGGAGAACGAGGATTGCCCGGAGCA 451 549 567 Antisense
GGAGCACCGGGAGCACAGGGAATGA 643 519 586 Antisense
GGACTCCCAGGACCGAAGGTGATCT 406 525 640 Antisense
GTGATCTTGGATCTGCTGGACTTCC 154 485 658 Antisense
GCATGTTGACAATTATCGCTTCGGC 124 311 732 Antisense
TATCGCTTCGGCGACTATTCACTGG 641 657 745 Antisense
TATTCACTGGTCAAGTCATCCGGCA 447 661 760 Antisense
Sequence Source Affymetrix Proprietary Database