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[181050_at] Spectrin alpha chain

Description C50C3.2 /REP_DB=WormBase Gene ID /WP=CE01861 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Spectrin alpha chain
Cluster 6grp_total > 77      4grp_total > 18      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2.3
(-3)
A 		6.3
(2)
A 		7.1
(3)
A 		7.1
(3)
A 		5
B 4
(-0.3)
A 		1.8
(-3)
A 		3.8
(-0.5)
A 		6.6
(3)
A 		5
C 6.4
(0.6)
A 		8.4
(2.3)
A 		2
(-3)
A 		9.3
(3)
A 		7
avr 4.2
(-3) 		5.5
(-0.8) 		4.3
(-2.8) 		7.7
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 3.9
(-2.9)
A 		23.6
(-0.9)
A 		3.2
(-3)
A 		5.5
(-2.8)
A 		5.2
(-2.8)
A 		60.3
(3)
A 		57
B 4
(-2.9)
A 		3.8
(-3)
A 		3.2
(-3)
A 		3.5
(-3)
A 		17.6
(-1.9)
A 		81
(3)
A 		78
C 1
(-3)
A 		3.8
(-2.7)
A 		2.6
(-2.9)
A 		2.9
(-2.8)
A 		29.2
(-0.4)
A 		66.4
(3)
A 		65
avr 3
(-3) 		10.4
(-2.3) 		3
(-3) 		4
(-2.9) 		17.3
(-1.7) 		69.2
(3) 		66
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2
1 2 3 4 range
A 0.8
(-3)
A 		1.4
(0.3)
A 		1.9
(3)
A 		1
(-1.9)
A 		1
B 1.3
(2.3)
A 		0.5
(-3)
A 		0.9
(-0.3)
A 		1.4
(3)
A 		1
C 2.1
(1.9)
A 		2.4
(3)
A 		0.7
(-3)
A 		1.6
(0.2)
A 		2
avr 1.4
(3) 		1.4
(3) 		1.2
(-3) 		1.3
(0) 		0

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 0.7
(-3)
A 		8.4
(0.3)
A 		0.7
(-3)
A 		1.4
(-2.7)
A 		1.6
(-2.6)
A 		14.7
(3)
A 		14
B 1.4
(-2.9)
A 		1.3
(-2.9)
A 		0.8
(-3)
A 		0.9
(-3)
A 		7.1
(-1.7)
A 		30.2
(3)
A 		29
C 0.4
(-3)
A 		1.2
(-2.8)
A 		0.7
(-2.9)
A 		0.6
(-2.9)
A 		9.5
(-0.5)
A 		22.2
(3)
A 		22
avr 0.8
(-3) 		3.6
(-2.2) 		0.7
(-3) 		1
(-2.9) 		6.1
(-1.5) 		22.4
(3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181050_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7282
Sequence Type Exemplar sequence
Representative Public ID C50C3.2 NCBI
Target Description C50C3.2 /REP_DB=WormBase Gene ID /WP=CE01861 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Spectrin alpha chain
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_066386(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066386 NCBI Caenorhabditis elegans C50C3.2 (C50C3.2) mRNA, complete cds. 11/11 A 
SNAP00000020235 ENSEMBL cdna:SNAP chromosome:CEL140:III:8181854:8191066:1 11/11 None
GENEFINDER00000020242 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8181854:8193530:1 11/11 None
C50C3.2 ENSEMBL cdna:known chromosome:CEL140:III:8181854:8189292:1 gene:C50C3.2 11/11 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
chrIII:8181849-8189229(+) 99.84 100.0
Public Domain and Genome References
Gene Title Spectrin alpha chain
Ensembl C50C3.2
Entrez Gene 176154 Entrez gene
SwissProt P34367 EMBL-EBI
WormBase CE01861 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA27974 Hypothetical protein C50C3.2 [Caenorhabditis elegans] ref|NP_498787.1| C50C3.2 [Caenorhabditis elegans] sp|P34367|YLJ2_CAEEL Hypothetical protein C50C3.2 in chromosome III 0.0
blast CAE70194 Hypothetical protein CBG16668 [Caenorhabditis briggsae] 0.0
blast S44622 C50C3.3 protein - Caenorhabditis elegans 0.0
blast S44621 C50C3.2 protein - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.0072
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.053
Pfam IPR002017 EMBL-EBI Spectrin repeat 1.4E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.29
Pfam IPR002017 EMBL-EBI Spectrin repeat 8.5E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.13
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.49
Pfam IPR002017 EMBL-EBI Spectrin repeat 6.4E-7
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.0072
Pfam IPR002017 EMBL-EBI Spectrin repeat 6.9E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 1.4E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.29
Pfam IPR002017 EMBL-EBI Spectrin repeat 8.5E-4
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.13
Pfam IPR002017 EMBL-EBI Spectrin repeat 0.49
Pfam IPR002017 EMBL-EBI Spectrin repeat 6.4E-7
Sequence
Target Sequence 
>C. ELEGANS:181050_AT
aagagccttattaatctgattgataaggtacagaaacgtggaatgattcaagatctggaa
aagtggagaagtcttatggaatctcgttacatcttcaataacaaattctcttctgccaca
ccacatggagttcttgtcgaaatgtgtcaatgtcttgagctgatgagttcaatgctgcga
tctgtggagcaatcaattgcagatagaaatcacaacggagtcactgagaaacagcttcac
gagtttgaattagcctttgattatttcgatcgagaaaggaatggatggttggattataaa
catttcgagttgtgccttaaatctcaaggatataacttttctgctgaaaatactctcaaa
gagacgatgaccctcttggatccatccacaactggtcatattcagaagcatgactacgtg
cgttatatggtgaagcatgagacaacaaacattcttgacgatcattcagccattgaagat
gctttgaagaacctggatgctaggaagatttctgatagtatgcctcgaaaagaagctgaa
ttcttcatgagcaagattgcaaagcacgccgagaccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGAGCCTTATTAATCTGATTGATA 62 155 5707 Antisense
TCTCGTTACATCTTCAATAACAAAT 603 611 5788 Antisense
AATAACAAATTCTCTTCTGCCACAC 451 169 5803 Antisense
TAAACATTTCGAGTTGTGCCTTAAA 307 641 6003 Antisense
TTTTCTGCTGAAAATACTCTCAAAG 439 675 6043 Antisense
CCTCTTGGATCCATCCACAACTGGT 127 269 6078 Antisense
GATCCATCCACAACTGGTCATATTC 65 417 6085 Antisense
ATTCAGAAGCATGACTACGTGCGTT 45 13 6106 Antisense
AACCTGGATGCTAGGAAGATTTCTG 342 147 6196 Antisense
GAAGATTTCTGATAGTATGCCTCGA 19 339 6210 Antisense
AGATTGCAAAGCACGCCGAGACCAG 632 65 6260 Antisense
Sequence Source Affymetrix Proprietary Database