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[189785_at] EF hand (2 domains)

Description C56A3.6 /REP_DB=WormBase Gene ID /WP=CE09034 /TR=Q18874 /GB=CAB01132.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=EF hand (2 domains)
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 95      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 87      6grp_total > 96      4grp_total > 05      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1090
1 2 3 4 range
A 1010.7
(0.8)
P 		645.1
(-2.6)
P 		605.5
(-3)
P 		1242.6
(3)
P 		637
B 942.1
(-1.1)
P 		725.9
(-2.4)
P 		629.6
(-3)
P 		1608.3
(3)
P 		979
C 1005.9
(0.5)
P 		518
(-3)
P 		684
(-1.8)
P 		1359.8
(3)
P 		842
avr 986.2
(-0.2) 		629.7
(-3) 		639.7
(-2.9) 		1403.6
(3) 		774

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 953
1 2 3 4 5 6 range
A 896.1
(-3)
P 		930.6
(-2.6)
P 		1134.8
(-0.2)
P 		1229.5
(0.9)
P 		1409.7
(3)
P 		1363
(2.5)
P 		514
B 1092.5
(-2.1)
P 		986.2
(-3)
P 		1024.1
(-2.7)
P 		1268.3
(-0.7)
P 		1460.7
(0.8)
P 		1736.4
(3)
P 		750
C 783.1
(-3)
P 		1039.2
(-0.7)
P 		1021.9
(-0.8)
P 		1171.2
(0.5)
P 		1124.5
(0.1)
P 		1447.9
(3)
P 		665
avr 923.9
(-3) 		985.3
(-2.4) 		1060.3
(-1.6) 		1223
(0) 		1331.6
(1.1) 		1515.8
(3) 		592
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 228
1 2 3 4 range
A 368
(3)
P 		140
(-3)
P 		158.3
(-2.5)
P 		181.9
(-1.9)
P 		228
B 300.4
(1.7)
P 		179.3
(-2)
P 		145.9
(-3)
P 		342.7
(3)
P 		197
C 333
(3)
P 		148.9
(-3)
P 		238.4
(-0.1)
P 		229.3
(-0.4)
P 		184
avr 333.8
(3) 		156.1
(-3) 		180.9
(-2.2) 		251.3
(0.2) 		178

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 482
1 2 3 4 5 6 range
A 165.2
(-3)
P 		331
(0.8)
P 		247.1
(-1.1)
P 		311.8
(0.4)
P 		425.4
(3)
P 		331.8
(0.8)
P 		260
B 380.1
(-1)
P 		328.3
(-1.8)
P 		248.7
(-3)
P 		335.9
(-1.7)
P 		593.5
(2.2)
P 		647.5
(3)
P 		399
C 290.3
(-1.7)
P 		317.1
(-1)
P 		260.1
(-2.4)
P 		235.5
(-3)
P 		363.9
(0.1)
P 		484.7
(3)
P 		249
avr 278.5
(-2.3) 		325.5
(-1.1) 		252
(-3) 		294.4
(-1.9) 		460.9
(2.3) 		488
(3) 		236
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189785_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14382
Sequence Type Exemplar sequence
Representative Public ID C56A3.6 NCBI
Target Description C56A3.6 /REP_DB=WormBase Gene ID /WP=CE09034 /TR=Q18874 /GB=CAB01132.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=EF hand (2 domains)
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_073955(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073955 NCBI Caenorhabditis elegans C56A3.6 (C56A3.6) mRNA, complete cds. 11/11 None
SNAP00000001397 ENSEMBL cdna:SNAP chromosome:CEL140:V:13556071:13558976:-1 11/11 None
GENEFINDER00000001403 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13556071:13558976:-1 11/11 None
C56A3.6 ENSEMBL cdna:known chromosome:CEL140:V:13556071:13558983:-1 gene:C56A3.6 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
chrV:13556070-13558976(-) 100.0 100.0
Public Domain and Genome References
Gene Title EF hand (2 domains)
Ensembl C56A3.6
Entrez Gene 179837 Entrez gene
SwissProt Q18874 EMBL-EBI
WormBase CE32339 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.11205.1.S1_AT similar to EF hand domain family, member A2 cfa
CANINE_2:CFAAFFX.11205.1.S1_S_AT similar to EF hand domain family, member A2 cfa
DROSOPHILA_2:1635307_AT dm
DROSOPHILA_2:1627462_A_AT dm
DROSOPHILA_2:1626421_AT dm
DROSGENOME1:154216_AT dm
CHICKEN:GGA.17219.1.S1_AT similar to hypothetical protein LOC286097 gga
CHICKEN:GGAAFFX.8703.1.S1_AT similar to hypothetical protein LOC286097 gga
HG-U133_PLUS_2:238458_AT EF-hand domain family, member A2 hs
HG-U133B:238458_AT EF-hand domain family, member A2 hs
U133_X3P:HS.131044.0.S1_3P_AT EF-hand domain family, member A2 hs
HG-U95E:82120_AT EF-hand domain family, member A2 hs
HG-U95D:85591_AT EF-hand domain family, member A2 hs
HG-U95C:66618_AT EF-hand domain family, member A2 hs
HG-U95D:87552_AT EF-hand domain family, member A2 hs
RG-U34C:RC_AI104589_AT EF hand domain family, member A2 rn
RAE230A:1373196_AT EF hand domain family, member A2 rn
RAT230_2:1373196_AT EF hand domain family, member A2 rn
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 CAB01132 Hypothetical protein C56A3.6 [Caenorhabditis elegans] ref|NP_506356.2| C56A3.6 [Caenorhabditis elegans] 0.0
blast CAE62566 Hypothetical protein CBG06677 [Caenorhabditis briggsae] 0.0
blast AAO24933 RH09265p [Drosophila melanogaster] 4.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.0030
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 8.2E-7
Sequence
Target Sequence 
>C. ELEGANS:189785_AT
accacgttgctcttacatttattcggtttgagaggaaatgctacgctgagcttcgacgaa
ttccagcaattttatgaaaacctacaagaagagctaatggaaattgagttctacgaattc
gctcgtggcaagaccgcaatttcacctgtcgatttcgcccgtctcattctccgttacagt
atcgtaaattttgatgactatcacaaatatcttcaacgagtgcaagagaaatcagatgac
gatgagccaggcatcagtcttagtcaatgggcaactttcagtcgtttcctgaataatttg
gctgaatttcaaagtgctgttcgtttgtatgtgaacagtaatgtaccagtctcggaaccg
gaatttgctcgagctgttggatgtactattggaaaagaattggatccggtcgttgtttca
atgatatttcgaatctttgacgagaacaatgatggaacactttcctatccagagtttttg
gctgtaatgagtgatcgactccatcgagggcttcgaggacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCACGTTGCTCTTACATTTATTCG 245 83 721 Antisense
GAAATGCTACGCTGAGCTTCGACGA 381 361 755 Antisense
AAGACCGCAATTTCACCTGTCGATT 651 153 850 Antisense
GTCTCATTCTCCGTTACAGTATCGT 599 469 881 Antisense
GAGCCAGGCATCAGTCTTAGTCAAT 388 385 964 Antisense
AATGGGCAACTTTCAGTCGTTTCCT 486 161 986 Antisense
GTAATGTACCAGTCTCGGAACCGGA 34 463 1058 Antisense
GGAACCGGAATTTGCTCGAGCTGTT 241 529 1074 Antisense
GAATTGGATCCGGTCGTTGTTTCAA 236 323 1117 Antisense
GGAACACTTTCCTATCCAGAGTTTT 6 527 1174 Antisense
GACTCCATCGAGGGCTTCGAGGACG 178 375 1217 Antisense
Sequence Source Affymetrix Proprietary Database