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[173983_at] smooth muscle protein SM22 like

Description AV187597 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F43G9.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV187597 /WB_GENE_ID=F43G9.9 /WP=CE10370 /CHR=1 /FEA=Genomic Cluster /GEN=cpn-1 /DEF=smooth muscle protein SM22 like; Caenorhabditis elegans cDNA clone:yk513g12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 98      4grp_highest_8_8 > 12      4grp_high_8_8 > 31      6grp_highest_nonorm > 48      6grp_total > 96      4grp_total > 32      6grp_highest_sub > In      6grp_cgc > 78      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 656
1 2 3 4 range
A 1376.2
(-3)
P 		1462.3
(-2.2)
P 		2032.1
(3)
P 		1994.4
(2.7)
P 		656
B 1420.4
(-3)
P 		1792.4
(3)
P 		1732.3
(2)
P 		1601.3
(-0.1)
P 		372
C 1600.4
(-3)
P 		1771.2
(-0.2)
P 		1739.9
(-0.7)
P 		1960.7
(3)
P 		360
avr 1465.7
(-3) 		1675.3
(0.3) 		1834.8
(2.7) 		1852.1
(3) 		386

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2737
1 2 3 4 5 6 range
A 3036.9
(-0.7)
P 		2162.6
(-3)
P 		3976
(1.8)
P 		4051.5
(1.9)
P 		4060.9
(2)
P 		4452.9
(3)
P 		2290
B 2707.6
(-2)
P 		2290.3
(-3)
P 		2638.8
(-2.2)
P 		3438.5
(-0.4)
P 		4461.5
(2)
P 		4899.3
(3)
P 		2609
C 2460.4
(-3)
P 		2524.2
(-2.8)
P 		3017.5
(-1.4)
P 		3734
(0.6)
P 		4304.7
(2.2)
P 		4594.9
(3)
P 		2135
avr 2735
(-1.9) 		2325.7
(-3) 		3210.8
(-0.7) 		3741.3
(0.7) 		4275.7
(2) 		4649
(3) 		2323
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 315
1 2 3 4 range
A 501.1
(2.2)
P 		317.4
(-2.4)
P 		531.2
(3)
P 		291.9
(-3)
P 		239
B 453
(3)
P 		442.7
(2.4)
P 		401.4
(0.2)
P 		341.2
(-3)
P 		112
C 529.8
(1.3)
P 		509.2
(0.9)
P 		606.4
(3)
P 		330.6
(-3)
P 		276
avr 494.6
(2.4) 		423.1
(0.2) 		513
(3) 		321.2
(-3) 		192

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1267
1 2 3 4 5 6 range
A 559.8
(-3)
P 		769.1
(-1.1)
P 		865.9
(-0.2)
P 		1027.6
(1.2)
P 		1225.4
(3)
P 		1084.1
(1.7)
P 		666
B 942.1
(-1.5)
P 		762.3
(-2.4)
P 		640.8
(-3)
P 		910.7
(-1.6)
P 		1812.7
(2.9)
P 		1826.9
(3)
P 		1186
C 911.9
(-1.8)
P 		770.2
(-2.9)
P 		768
(-2.9)
P 		750.9
(-3)
P 		1392.9
(1.9)
P 		1538.2
(3)
P 		787
avr 804.6
(-2.6) 		767.2
(-2.9) 		758.2
(-3) 		896.4
(-1.9) 		1477
(2.9) 		1483.1
(3) 		725
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173983_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22576
Sequence Type Exemplar sequence
Representative Public ID AV187597 NCBI
Target Description AV187597 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F43G9.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV187597 /WB_GENE_ID=F43G9.9 /WP=CE10370 /CHR=1 /FEA=Genomic Cluster /GEN=cpn-1 /DEF=smooth muscle protein SM22 like; Caenorhabditis elegans cDNA clone:yk513g12 : 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_059938(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059938 NCBI Caenorhabditis elegans CalPoNin family member (cpn-1) (cpn-1) mRNA, complete cds. 11/11 None
F43G9.9.2 ENSEMBL cdna:known chromosome:CEL140:I:8644260:8646064:-1 gene:F43G9.9 11/11 A 
F43G9.9.1 ENSEMBL cdna:known chromosome:CEL140:I:8644260:8645253:-1 gene:F43G9.9 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
chrI:8644202-8645180(-) 100.0 100.0
Public Domain and Genome References
Gene Title smooth muscle protein SM22 like
Gene Symbol cpn-1
Ensembl F43G9.9
Entrez Gene 172660 Entrez gene
SwissProt Q93713 EMBL-EBI
WormBase CE10370 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1588851_AT similar to calponin 3 cfa
CANINE:1586766_S_AT similar to calponin 3 cfa
CANINE:1586765_AT similar to calponin 3 cfa
CANINE_2:CFA.11630.1.S1_S_AT similar to calponin 3 cfa
CANINE_2:CFA.11630.2.A1_S_AT similar to calponin 3 cfa
DROSOPHILA_2:1635828_AT dm
DROSGENOME1:153092_AT dm
CHICKEN:GGA.4622.1.S1_AT similar to calponin 3; calponin, acidic gga
CHICKEN:GGA.4622.2.S1_A_AT similar to calponin 3; calponin, acidic gga
HG-U133A:201445_AT calponin 3, acidic hs
HG-U133A_2:201445_AT calponin 3, acidic hs
HG-U133_PLUS_2:201445_AT calponin 3, acidic hs
HG-FOCUS:201445_AT calponin 3, acidic hs
HUGENEFL:S80562_AT calponin 3, acidic hs
U133_X3P:G4502922_3P_AT calponin 3, acidic hs
HG-U95AV2:40953_AT calponin 3, acidic hs
HG-U133_PLUS_2:228297_AT Calponin 3, acidic hs
HG-U133B:228297_AT Calponin 3, acidic hs
HG-U95E:72921_AT Calponin 3, acidic hs
HG-U95D:75890_R_AT Calponin 3, acidic hs
U133_X3P:HS.194662.1.A1_3P_AT Calponin 3, acidic hs
MOE430A:1455570_X_AT calponin 3, acidic mm
MOUSE430A_2:1455570_X_AT calponin 3, acidic mm
MOUSE430_2:1455570_X_AT calponin 3, acidic mm
MOUSE430_2:1426724_AT calponin 3, acidic mm
MOUSE430A_2:1426724_AT calponin 3, acidic mm
MOE430A:1426724_AT calponin 3, acidic mm
MOUSE430A_2:1436759_X_AT calponin 3, acidic mm
MOE430A:1436759_X_AT calponin 3, acidic mm
MOUSE430_2:1436759_X_AT calponin 3, acidic mm
MOUSE430A_2:1456380_X_AT calponin 3, acidic mm
MOE430A:1456380_X_AT calponin 3, acidic mm
MOUSE430_2:1456380_X_AT calponin 3, acidic mm
MU11KSUBA:AA123989_AT calponin 3, acidic mm
MG-U74AV2:160150_F_AT calponin 3, acidic mm
MOE430A:1436836_X_AT calponin 3, acidic mm
MOUSE430A_2:1436836_X_AT calponin 3, acidic mm
MOUSE430_2:1436836_X_AT calponin 3, acidic mm
MOE430A:1438354_X_AT Calponin 3, acidic (Cnn3), mRNA mm
MOUSE430A_2:1438354_X_AT Calponin 3, acidic (Cnn3), mRNA mm
MOUSE430_2:1438354_X_AT Calponin 3, acidic (Cnn3), mRNA mm
MU19KSUBB:TC27090_AT Calponin 3, acidic (Cnn3), mRNA mm
RG-U34A:RC_AA944422_AT calponin 3, acidic rn
RAE230A:1387856_AT calponin 3, acidic rn
RAT230_2:1387856_AT calponin 3, acidic rn
RAE230B:1396616_AT Calponin 3, acidic rn
RAT230_2:1396616_AT Calponin 3, acidic rn
RG-U34A:RC_AI639371_AT Calponin 3, acidic rn
Protein Similarities
Method ID Description E-Value
blast CAB02104 Hypothetical protein F43G9.9 [Caenorhabditis elegans] ref|NP_492339.1| CalPoNin family member (cpn-1) [Caenorhabditis elegans] gb|AAF01679.1| CPN-1 [Caenorhabditis elegans] 1.0E-105
blast AAF01687 CPN-1 [Caenorhabditis briggsae] emb|CAE67087.1| Hypothetical protein CBG12498 [Caenorhabditis briggsae] 2.0E-99
blast EAA01312 ENSANGP00000020389 [Anopheles gambiae str. PEST] ref|XP_321834.2| ENSANGP00000020389 [Anopheles gambiae str. PEST] 6.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 4.7E-23
Pfam IPR000557 EMBL-EBI Calponin repeat 9.8E-6
Sequence
Target Sequence 
>C. ELEGANS:173983_AT
cccgccacatgtaatttccaacgtattccctacattctcaaccggttctggtaatcataa
cgtgaaattttcctattcatttttttatatgtccaaattatcaagtgtactgtaatcgat
ctggaagccacgcacttctagaaaattcaattcgcttctccaaatttcatcggttccaac
atacaactcataatgatttccatgttttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCGCCACATGTAATTTCCAACGTA 468 261 579 Antisense
TAATTTCCAACGTATTCCCTACATT 302 635 590 Antisense
CCTACATTCTCAACCGGTTCTGGTA 658 267 607 Antisense
AACCGGTTCTGGTAATCATAACGTG 295 147 618 Antisense
ATAACGTGAAATTTTCCTATTCATT 404 25 635 Antisense
GTGTACTGTAATCGATCTGGAAGCC 69 485 683 Antisense
ATCTGGAAGCCACGCACTTCTAGAA 41 35 697 Antisense
GAAAATTCAATTCGCTTCTCCAAAT 528 353 719 Antisense
CAATTCGCTTCTCCAAATTTCATCG 164 181 726 Antisense
TTTCATCGGTTCCAACATACAACTC 224 671 743 Antisense
AACTCATAATGATTTCCATGTTTTT 629 139 763 Antisense
Sequence Source Affymetrix Proprietary Database