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[175711_at] collagen-like repeats

Description g1016705 /REP_DB=GenBank Identifier /GB=U33919.1 /PROTEIN_GB=AAA96505.1 /CHR=X /FEA=Mapped Transcript /DEF=MEC-5 precursor
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 50      6grp_total > 24      4grp_total > 52      6grp_highest_sub > De      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1163
1 2 3 4 range
A 1018.8
(1.4)
P 		1332.1
(3)
P 		1063.9
(1.6)
P 		169.6
(-3)
P 		1163
B 1292.9
(3)
P 		1186.1
(2.4)
P 		1056.9
(1.7)
P 		170.8
(-3)
P 		1122
C 1080.6
(2.6)
P 		1145.4
(3)
P 		1100.9
(2.7)
P 		198.5
(-3)
P 		947
avr 1130.8
(2.5) 		1221.2
(3) 		1073.9
(2.2) 		179.6
(-3) 		1042

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 709
1 2 3 4 5 6 range
A 708.4
(2.4)
P 		769.6
(3)
P 		458.6
(-0.3)
P 		390.5
(-1)
P 		202.8
(-3)
P 		292.2
(-2.1)
P 		567
B 766.8
(3)
P 		704.4
(2.3)
P 		461.2
(-0.2)
P 		422.7
(-0.6)
P 		283.5
(-2.1)
P 		200.5
(-3)
P 		566
C 909.5
(3)
P 		662.5
(0.9)
P 		702.5
(1.2)
P 		244.3
(-2.7)
P 		244.7
(-2.7)
P 		214.5
(-3)
P 		695
avr 794.9
(3) 		712.2
(2.1) 		540.8
(0.3) 		352.5
(-1.7) 		243.7
(-2.9) 		235.7
(-3) 		559
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 388
1 2 3 4 range
A 371
(3)
P 		289.2
(1.6)
P 		278.1
(1.4)
P 		24.8
(-3)
P 		346
B 412.3
(3)
P 		292.9
(1.1)
P 		244.9
(0.3)
P 		36.4
(-3)
P 		376
C 357.7
(2.6)
P 		329.3
(2.1)
P 		383.7
(3)
P 		33.5
(-3)
P 		350
avr 380.3
(3) 		303.8
(1.7) 		302.2
(1.7) 		31.6
(-3) 		349

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 288
1 2 3 4 5 6 range
A 130.6
(-1)
P 		273.7
(3)
P 		99.9
(-1.9)
P 		99
(-1.9)
P 		61.2
(-3)
P 		71.1
(-2.7)
P 		213
B 266.8
(3)
P 		234.5
(2)
P 		112
(-1.8)
P 		112
(-1.8)
P 		115.2
(-1.7)
P 		74.8
(-3)
P 		192
C 337.1
(3)
P 		202.2
(0.2)
P 		178.8
(-0.3)
P 		49.1
(-3)
P 		79.2
(-2.4)
P 		71.8
(-2.5)
P 		288
avr 244.8
(3) 		236.8
(2.7) 		130.2
(-1) 		86.7
(-2.5) 		85.2
(-2.6) 		72.6
(-3) 		172
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175711_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20025
Sequence Type Exemplar sequence
Representative Public ID 1016705 NCBI
Target Description g1016705 /REP_DB=GenBank Identifier /GB=U33919.1 /PROTEIN_GB=AAA96505.1 /CHR=X /FEA=Mapped Transcript /DEF=MEC-5 precursor
Cluster Evidence This cluster is supported by a Mapped Transcript.
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(11)
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. 11/11 A 
E03G2.3 ENSEMBL cdna:known chromosome:CEL140:X:15943925:15948869:1 gene:E03G2.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000041428 5/11 Cross Hyb Matching Probes None
GENEFINDER00000041433 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:15943922-15948869(+) 99.91 99.91
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:175711_AT
cttccaggctggatcgtgaacgacaaaggctactgcatcttggcgctgggcaactgtccc
ccggctttcactcagattggagcttaccaggcgcatgttgacaattatcgcttcggcgac
tattcactggtcaagtcatccggcatcggaggaaacgaagaacaattcgcgttgaaagtt
catgcttgctgccgataattacaggcggtttggtttggaaatgccaaataataaatgcga
aatatatgtttaaaaaaagaatactcgacacctcatcatttttatttctctcgtatactt
acacttgcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCCAGGCTGGATCGTGAACGACA 439 217 804 Antisense
CGTGAACGACAAAGGCTACTGCATC 116 245 818 Antisense
GACAAAGGCTACTGCATCTTGGCGC 156 365 825 Antisense
CCCGGCTTTCACTCAGATTGGAGCT 41 261 863 Antisense
TTGGAGCTTACCAGGCGCATGTTGA 271 707 880 Antisense
GCTTGCTGCCGATAATTACAGGCGG 73 307 987 Antisense
TACAGGCGGTTTGGTTTGGAAATGC 188 625 1003 Antisense
AAAGAATACTCGACACCTCATCATT 595 121 1059 Antisense
TACTCGACACCTCATCATTTTTATT 196 647 1065 Antisense
TCATCATTTTTATTTCTCTCGTATA 260 621 1076 Antisense
TTCTCTCGTATACTTACACTTGCTA 181 693 1089 Antisense
Sequence Source GenBank