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[173867_s_at] calmodulin-binding trp1 like protein

Description C62927 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K01A11.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C62927 /WB_GENE_ID=K01A11.4 /WP=CE03452 /CHR=3 /FEA=Genomic Cluster /DEF=calmodulin-binding trp1 like protein; C.elegans cDNA clone yk297a3 : 5prime end, single read.
Cluster 6grp_total > 78      4grp_total > 27      6grp_cgc > 49      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 88.7
(-1.7)
A 		93.4
(-1.3)
P 		72.8
(-3)
A 		144.1
(3)
P 		71
B 51.9
(-2)
A 		70.1
(2.3)
A 		73.2
(3)
A 		47.8
(-3)
P 		25
C 63.4
(-1.5)
A 		92.4
(3)
A 		54
(-3)
A 		71.9
(-0.2)
P 		38
avr 68
(-2.6) 		85.3
(2.3) 		66.7
(-3) 		87.9
(3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 89.9
(-1.4)
A 		70.5
(-2.2)
M 		50.5
(-3)
A 		73.1
(-2.1)
P 		110.1
(-0.7)
P 		202.9
(3)
P 		152
B 67.2
(-2)
A 		52.2
(-3)
P 		61.5
(-2.4)
A 		73.1
(-1.6)
A 		100.9
(0.2)
P 		142.5
(3)
P 		90
C 83
(-0.7)
A 		85.3
(-0.5)
P 		134.4
(3)
P 		51.2
(-3)
M 		94.4
(0.1)
P 		123.1
(2.2)
P 		83
avr 80
(-2.1) 		69.3
(-2.8) 		82.1
(-1.9) 		65.8
(-3) 		101.8
(-0.6) 		156.2
(3) 		90
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 32.3
(3)
A 		20.3
(-2.4)
P 		19
(-3)
A 		21.1
(-2.1)
P 		13
B 16.6
(2.4)
A 		17.3
(3)
A 		17
(2.7)
A 		10.2
(-3)
P 		7
C 21
(0.7)
A 		26.6
(3)
A 		18.8
(-0.2)
A 		12.1
(-3)
P 		15
avr 23.3
(3) 		21.4
(1.7) 		18.3
(-0.4) 		14.5
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 16.6
(-2.1)
A 		25.1
(-0.8)
M 		11
(-3)
A 		18.5
(-1.8)
P 		33.2
(0.5)
P 		49.4
(3)
P 		38
B 23.4
(-1.7)
A 		17.4
(-2.6)
P 		14.9
(-3)
A 		19.4
(-2.3)
A 		41
(1.1)
P 		53.1
(3)
P 		38
C 30.8
(1)
A 		26
(0)
P 		34.2
(1.6)
P 		10.3
(-3)
M 		30.5
(0.9)
P 		41.2
(3)
P 		31
avr 23.6
(-1.6) 		22.8
(-1.7) 		20
(-2.3) 		16.1
(-3) 		34.9
(0.5) 		47.9
(3) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173867_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24247
Sequence Type Exemplar sequence
Representative Public ID C62927 NCBI
Target Description C62927 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K01A11.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C62927 /WB_GENE_ID=K01A11.4 /WP=CE03452 /CHR=3 /FEA=Genomic Cluster /DEF=calmodulin-binding trp1 like protein; C.elegans cDNA clone yk297a3 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_065308(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065308 NCBI Caenorhabditis elegans defective SPErmatogenesis family member (spe-41) (spe-41) mRNA, complete cds. 11/11 None
SNAP00000013901 ENSEMBL cdna:SNAP chromosome:CEL140:III:3439090:3444175:-1 11/11 None
GENEFINDER00000013909 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3439090:3444175:-1 11/11 None
K01A11.4 ENSEMBL cdna:known chromosome:CEL140:III:3438998:3444196:-1 gene:K01A11.4 11/11 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
chrIII:3439074-3444176(-) 100.0 100.0
Public Domain and Genome References
Gene Title calmodulin-binding trp1 like protein
Gene Symbol spe-41
Ensembl K01A11.4
Entrez Gene 175446 Entrez gene
SwissProt Q21070 EMBL-EBI
WormBase CE03452 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
6811 ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5840 ribosome inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91343 Hypothetical protein K01A11.4 [Caenorhabditis elegans] ref|NP_497709.1| defective SPErmatogenesis family member (spe-41) [Caenorhabditis elegans] gb|AAQ22724.1| TRP-3 channel protein [Caenorhabditis elegans] emb|CAC81656.1| TRP homologous cation channel protein [Caenorhabditis elegans] 0.0
blast CAE64962 Hypothetical protein CBG09796 [Caenorhabditis briggsae] 0.0
blast EAA03611 ENSANGP00000017234 [Anopheles gambiae str. PEST] ref|XP_307827.2| ENSANGP00000017234 [Anopheles gambiae str. PEST] 6.0E-33
blast EAA03611 ENSANGP00000017234 [Anopheles gambiae str. PEST] ref|XP_307827.2| ENSANGP00000017234 [Anopheles gambiae str. PEST] 4.0E-32
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 5.3E-18
Pfam IPR002110 EMBL-EBI Ankyrin 6.1E-5
Pfam IPR005821 EMBL-EBI Ion transport protein 5.3E-18
Pfam IPR005821 EMBL-EBI Ion transport protein 5.3E-18
Pfam IPR002110 EMBL-EBI Ankyrin 6.1E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497709.1 9 328-345,365-387,400-418,428-450,474-496,516-538,570-589,609-631,656-678
K01A11.4 9 328-345,365-387,400-418,428-450,474-496,516-538,570-589,609-631,656-678
SNAP00000013901 9 284-301,321-343,356-374,384-406,430-452,472-494,526-545,565-587,612-634
GENEFINDER00000013909 9 293-310,330-352,365-383,393-415,439-461,481-503,535-554,574-596,621-643
Sequence
Target Sequence 
>C. ELEGANS:173867_S_AT
tctctcgtgggaaatggcggctccgccaccgcttaatttgattcttgtagttgctcattt
tgtgcatcggaatttgctcaagagatactatgcttcaccggcgtggggcgagaagccggc
aaatgatgatgttgaggatcaggcagcagatgagcagtacatgcaacttctgatggtggt
tttcgctcgattcgttgcttccaaggagtgcaagtacaagtcgatttggagatccgaatt
tcagagagaggaaaaacaaccgcctcgagtgacattcctcacaaccggagcccattcctt
ccttatggacaacactttcgaaggattcaaaatgaggtcatctcgaaccatggaagctga
aggatacaaggaatacaccactgtccagtattatgtgcctaagagtaagacaccgggtcc
agctgctgcagctgatgcaggaactaaagtggctccgaaggatgacaaacctcaaaacaa
cccggttctagctagaactggaatcgattctccagttccatcttctaaacaggttatgtc
ttcggaattatctgctagcattccgagagctcgcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCTCGTGGGAAATGGCGGCTCCG 652 609 1981 Antisense
CGCCACCGCTTAATTTGATTCTTGT 701 257 2004 Antisense
CAAGAGATACTATGCTTCACCGGCG 697 183 2059 Antisense
TGATGGTGGTTTTCGCTCGATTCGT 487 565 2151 Antisense
GCTCGATTCGTTGCTTCCAAGGAGT 297 299 2165 Antisense
AAAACAACCGCCTCGAGTGACATTC 708 129 2233 Antisense
GCCCATTCCTTCCTTATGGACAACA 337 287 2270 Antisense
GAGGTCATCTCGAACCATGGAAGCT 349 403 2314 Antisense
TCTCCAGTTCCATCTTCTAAACAGG 67 605 2489 Antisense
ATGTCTTCGGAATTATCTGCTAGCA 546 47 2516 Antisense
TCTGCTAGCATTCCGAGAGCTCGCG 527 609 2531 Antisense
Sequence Source Affymetrix Proprietary Database