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[175243_at] calmodulin

Description AV176460_rc /REP_DB=TREMBL Accession /GB=AV176460 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk513f1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 17      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 03      6grp_total > 07      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2207
1 2 3 4 range
A 4120.9
(3)
P 		3773.6
(1.8)
P 		3602.4
(1.3)
P 		2309.1
(-3)
P 		1812
B 3439.1
(3)
P 		3338.6
(2.5)
P 		3186.9
(1.8)
P 		2221.9
(-3)
P 		1217
C 3387
(2.2)
P 		3535.7
(2.8)
P 		3603.2
(3)
P 		1913.6
(-3)
P 		1690
avr 3649
(3) 		3549.3
(2.6) 		3464.2
(2.3) 		2148.2
(-3) 		1501

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4818
1 2 3 4 5 6 range
A 6305.4
(3)
P 		3299
(-1.1)
P 		3032
(-1.5)
P 		1944.9
(-3)
P 		2778.8
(-1.9)
P 		2375.7
(-2.4)
P 		4361
B 6057
(3)
P 		4252.9
(0.1)
P 		2374.4
(-2.9)
P 		2480.7
(-2.8)
P 		2459.5
(-2.8)
P 		2329.5
(-3)
P 		3728
C 5494
(3)
P 		3745.7
(0.4)
P 		2659.3
(-1.2)
P 		2039.1
(-2.2)
P 		2598.3
(-1.3)
P 		1487.6
(-3)
P 		4006
avr 5952.1
(3) 		3765.9
(-0.4) 		2688.6
(-2) 		2154.9
(-2.9) 		2612.2
(-2.2) 		2064.3
(-3) 		3888
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1178
1 2 3 4 range
A 1500.4
(3)
P 		819.1
(-0.5)
P 		941.7
(0.1)
P 		338
(-3)
P 		1162
B 1096.7
(3)
P 		824.6
(0.4)
P 		738.5
(-0.4)
P 		473.5
(-3)
P 		623
C 1121.2
(2.1)
P 		1016.5
(1.5)
P 		1255.8
(3)
P 		322.7
(-3)
P 		933
avr 1239.4
(3) 		886.7
(0.5) 		978.7
(1.2) 		378.1
(-3) 		861

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1698
1 2 3 4 5 6 range
A 1162.4
(2.9)
P 		1173.3
(3)
P 		660.3
(-1.5)
P 		493.3
(-3)
P 		838.5
(0)
P 		578.4
(-2.2)
P 		680
B 2107.6
(3)
P 		1415.6
(0.3)
P 		576.6
(-3)
P 		657
(-2.7)
P 		999.3
(-1.3)
P 		868.6
(-1.9)
P 		1531
C 2036.4
(3)
P 		1142.9
(-0.3)
P 		676.8
(-2)
P 		410.1
(-3)
P 		840.8
(-1.4)
P 		498
(-2.7)
P 		1626
avr 1768.8
(3) 		1243.9
(0.5) 		637.9
(-2.4) 		520.1
(-3) 		892.9
(-1.2) 		648.3
(-2.4) 		1249
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175243_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21978
Sequence Type Exemplar sequence
Representative Public ID AV176460 NCBI
Target Description AV176460_rc /REP_DB=TREMBL Accession /GB=AV176460 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk513f1 : 3prime 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_070985(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070985 NCBI Caenorhabditis elegans T21H3.3 (calmodulin) mRNA, complete cds. 11/11 A 
T21H3.3.2 ENSEMBL cdna:known chromosome:CEL140:V:1156097:1157990:1 gene:T21H3.3 11/11 None
T21H3.3.1 ENSEMBL cdna:known chromosome:CEL140:V:1156101:1157990:1 gene:T21H3.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:1157591-1157886(+) 100.0 100.0
Public Domain and Genome References
Gene Title calmodulin
Gene Symbol cmd-1
Ensembl T21H3.3
Entrez Gene 178614 Entrez gene
SwissProt O16305 EMBL-EBI
WormBase CE13902 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:14718_F_AT calmodulin-2/3/5 (CAM5) (TCH1) at
ATH1-121501:266317_AT calmodulin-2/3/5 (CAM5) (TCH1) at
CANINE:1587332_AT similar to calmodulin 1 cfa
CANINE_2:CFAAFFX.4838.1.S1_S_AT similar to calmodulin 1 cfa
DROSOPHILA_2:1623682_A_AT Calmodulin dm
DROSGENOME1:153465_AT Calmodulin dm
CHICKEN:GGA.4454.1.S1_A_AT calmodulin 2 (phosphorylase kinase, delta) gga
CHICKEN:GGA.4454.2.S1_S_AT calmodulin 2 (phosphorylase kinase, delta) gga
HG-U95AV2:911_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
HC-G110:911_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133_PLUS_2:207243_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133A:207243_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
HG-FOCUS:207243_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133A_2:207243_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
HUGENEFL:M19311_AT calmodulin 2 (phosphorylase kinase, delta) hs
HUGENEFL:M19311_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
U133_X3P:G4502548_3P_S_AT calmodulin 2 (phosphorylase kinase, delta) hs
U133_X3P:G4502548_3P_AT calmodulin 2 (phosphorylase kinase, delta) hs
HG-U95AV2:33458_R_AT calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133_PLUS_2:229571_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133B:229571_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133_PLUS_2:235190_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133B:235190_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133_PLUS_2:236159_X_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U133B:236159_X_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U95C:64752_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U95E:74132_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HG-U95D:74880_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HU35KSUBC:RC_N74979_AT Calmodulin 2 (phosphorylase kinase, delta) hs
HU35KSUBD:RC_AA425311_AT Calmodulin 2 (phosphorylase kinase, delta) hs
U133_X3P:HS.127453.0.A1_3P_AT Calmodulin 2 (phosphorylase kinase, delta) hs
U133_X3P:HS.250582.0.A1_3P_AT Calmodulin 2 (phosphorylase kinase, delta) hs
U133_X3P:HS.250582.0.A1_3P_X_AT Calmodulin 2 (phosphorylase kinase, delta) hs
U133_X3P:HS.81263.0.A1_3P_AT Calmodulin 2 (phosphorylase kinase, delta) hs
MG-U74AV2:93293_AT calmodulin 2 mm
MOE430A:1422414_A_AT calmodulin 2 mm
MOUSE430_2:1422414_A_AT calmodulin 2 mm
MOUSE430A_2:1422414_A_AT calmodulin 2 mm
MU11KSUBA:M27844_F_AT calmodulin 2 mm
MU11KSUBA:AA409978_RC_S_AT calmodulin 2 mm
MU11KSUBB:MSA.502.0_S_AT calmodulin 2 mm
MG-U74AV2:161523_R_AT calmodulin 2 mm
MOE430A:1423807_A_AT calmodulin 2 mm
MOUSE430A_2:1423807_A_AT calmodulin 2 mm
MOUSE430_2:1423807_A_AT calmodulin 2 mm
MG-U74CV2:129302_AT Calmodulin 2, mRNA (cDNA clone MGC:29145 IMAGE:4006686) mm
MG-U74AV2:161133_AT Calmodulin 2, mRNA (cDNA clone MGC:29145 IMAGE:4006686) mm
MU19KSUBB:TC30408_AT Calmodulin (CamC) mRNA, 5' end mm
RN-U34:M17069_AT calmodulin 2 rn
RG-U34A:M17069_AT calmodulin 2 rn
RAE230A:1370246_AT calmodulin 2 rn
RAT230_2:1370246_AT calmodulin 2 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 AAB65364 Calmodulin protein 1 [Caenorhabditis elegans] ref|NP_503386.1| T21H3.3 [Caenorhabditis elegans] dbj|BAD88635.1| calmodulin [Dugesia japonica] dbj|BAD88634.1| calmodulin [Dugesia japonica] sp|O16305|CALM_CAEEL Calmodulin (CaM) emb|CAE58025.1| Hypothetical protein CBG01097 [Caenorhabditis briggsae] pdb|1OOJ|A Chain A, Structural Genomics Of Caenorhabditis Elegans : Calmodulin emb|CAA10601.1| calmodulin [Caenorhabditis elegans] 6.0E-80
blast EAA05425 ENSANGP00000012700 [Anopheles gambiae str. PEST] ref|XP_309749.2| ENSANGP00000012700 [Anopheles gambiae str. PEST] 2.0E-79
blast AAU06473 calmodulin [Culicoides sonorensis] gb|AAU84939.1| putative calmodulin [Toxoptera citricida] emb|CAA71006.1| calmodulin [Branchiostoma lanceolatum] emb|CAA70990.1| calmodulin protein [Branchiostoma floridae] emb|CAA40207.1| Calmodulin [Aplysia californica] gb|AAF58543.1| CG8472-PB, isoform B [Drosophila melanogaster] gb|AAF58542.1| CG8472-PA, isoform A [Drosophila melanogaster] gb|AAM50750.1| LD01127p [Drosophila melanogaster] gb|AAK61380.1| calmodulin [Aplysia californica] ref|NP_725120.1| CG8472-PB, isoform B [Drosophila melanogaster] ref|NP_523710.1| CG8472-PA, isoform A [Drosophila melanogaster] ref|XP_624247.1| PREDICTED: similar to CG8472-PA, isoform A [Apis mellifera] gb|AAO25039.1| LD02334p [Drosophila melanogaster] sp|P62153|CALMA_HALRO Calmodulin-A (CaM A) sp|P62148|CALM1_BRALA Calmodulin-1 (CaM 1) sp|P62147|CALM1_BRAFL Calmodulin-1 (CaM 1) sp|P62152|CALM_DROME Calmodulin (CaM) sp|P62154|CALM_LOCMI Calmodulin (CaM) sp|P62145|CALM_APLCA Calmodulin (CaM) pdb|2BKH|B Chain B, Myosin Vi Nucleotide-Free (Mdinsert2) Crystal Structure dbj|BAA19788.1| calmodulin [Halocynthia roretzi] dbj|BAA33967.1| calmodulin A [Halocynthia roretzi] dbj|BAB89360.1| calmodulin [Strongylocentrotus intermedius] dbj|BAA19787.1| calmodulin [Branchiostoma floridae] dbj|BAA19786.1| calmodulin [Branchiostoma lanceolatum] 2.0E-79
Protein Domains
Database ID Description E-Value
scop a.4.5.Transcription factor MotA, activation domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Transcription factor MotA, activation domain 1.39999997615814
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 8.7E-10
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 1.9E-9
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 2.5E-10
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 5.9E-10
Sequence
Target Sequence 
>C. ELEGANS:175243_AT
tgtagaaaattccctcttttcgcaccacacacacaccgtcacacgggccattttaaaatt
gtacctgaaatattttctgttgctttgaatttcgatttcgacaagcaacggcaaaaaatt
ttggcgcctagtgaacactttttgcaccattgctttctttttttttgttttggatttttt
ctttgaaaattcctattttatattattgtaaaagtcaaagtctccaaaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTAGAAAATTCCCTCTTTTCGCAC 149 559 22 Antisense
CGTCACACGGGCCATTTTAAAATTG 358 235 58 Antisense
GTACCTGAAATATTTTCTGTTGCTT 168 459 82 Antisense
TCTGTTGCTTTGAATTTCGATTTCG 208 607 97 Antisense
TTCGATTTCGACAAGCAACGGCAAA 164 695 112 Antisense
GCAACGGCAAAAAATTTTGGCGCCT 236 145 126 Antisense
AATTTTGGCGCCTAGTGAACACTTT 509 175 138 Antisense
GGCGCCTAGTGAACACTTTTTGCAC 212 543 144 Antisense
GAACACTTTTTGCACCATTGCTTTC 365 351 154 Antisense
TTTTGCACCATTGCTTTCTTTTTTT 594 677 161 Antisense
TGTAAAAGTCAAAGTCTCCAAAATC 500 557 228 Antisense
Sequence Source Affymetrix Proprietary Database