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[192211_at] LIM domain containing proteins

Description Y57G11A.3 /REP_DB=WormBase Gene ID /WP=CE14912 /TR=O18220 /GB=CAB16495.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=LIM domain containing proteins
Cluster 6grp_high1_10_10 > 42      6grp_total > 20      4grp_total > 40      6grp_high1_sub > 02_03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 266
1 2 3 4 range
A 112.1
(-3)
A 		247.4
(2.3)
P 		266.6
(3)
P 		257.7
(2.7)
P 		155
B 138.6
(-3)
A 		327.5
(1.7)
P 		377.7
(3)
P 		266.4
(0.2)
M 		239
C 132.3
(-3)
A 		273
(0.8)
P 		352
(3)
P 		188.1
(-1.5)
P 		220
avr 127.7
(-3) 		282.6
(1.5) 		332.1
(3) 		237.4
(0.2) 		204

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 121.9
(-1.9)
A 		272.6
(2.8)
P 		243.7
(1.9)
P 		277.7
(3)
P 		171.6
(-0.4)
P 		87.7
(-3)
P 		190
B 131.1
(-2)
P 		197.1
(1.9)
P 		216.5
(3)
P 		148.4
(-1)
P 		156.2
(-0.5)
P 		113.6
(-3)
P 		103
C 153.9
(-2.2)
P 		200.9
(1.8)
P 		210
(2.5)
P 		144.2
(-3)
P 		215.5
(3)
P 		201.8
(1.8)
P 		71
avr 135.6
(-2.9) 		223.5
(3) 		223.4
(3) 		190.1
(0.8) 		181.1
(0.1) 		134.4
(-3) 		89
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 40.8
(-2.4)
A 		53.7
(0)
P 		69.7
(3)
P 		37.7
(-3)
P 		32
B 44.2
(-3)
A 		80.9
(2.1)
P 		87.5
(3)
P 		56.8
(-1.3)
M 		43
C 43.8
(-2.2)
A 		78.5
(0.1)
P 		122.7
(3)
P 		31.7
(-3)
P 		91
avr 42.9
(-2.9) 		71
(0.4) 		93.3
(3) 		42.1
(-3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 22.5
(-2.9)
A 		96.9
(3)
P 		53.1
(-0.5)
P 		70.4
(0.9)
P 		51.8
(-0.6)
P 		21.4
(-3)
P 		76
B 45.6
(-1.6)
P 		65.6
(3)
P 		52.6
(0)
P 		39.3
(-3)
P 		63.5
(2.5)
P 		42.4
(-2.3)
P 		26
C 57.1
(1.1)
P 		61.3
(1.8)
P 		53.4
(0.6)
P 		29
(-3)
P 		69.7
(3)
P 		67.6
(2.7)
P 		41
avr 41.7
(-3) 		74.6
(3) 		53
(-0.9) 		46.2
(-2.2) 		61.7
(0.6) 		43.8
(-2.6) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192211_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9122
Sequence Type Exemplar sequence
Representative Public ID Y57G11A.3 NCBI
Target Description Y57G11A.3 /REP_DB=WormBase Gene ID /WP=CE14912 /TR=O18220 /GB=CAB16495.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=LIM domain containing proteins
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_070355(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070355 NCBI Caenorhabditis elegans Y57G11A.3 (Y57G11A.3) mRNA, complete cds. 11/11 None
SNAP00000030455 ENSEMBL cdna:SNAP chromosome:CEL140:IV:14500378:14505106:-1 11/11 None
GENEFINDER00000030459 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:14500378:14505106:-1 11/11 None
Y57G11A.3.2 ENSEMBL cdna:known chromosome:CEL140:IV:14500378:14505135:-1 gene:Y57G11A.3 11/11 None
Y57G11A.3.1 ENSEMBL cdna:known chromosome:CEL140:IV:14500378:14505133:-1 gene:Y57G11A.3 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
chrIV:14500383-14505112(-) 100.0 100.0
Public Domain and Genome References
Gene Title LIM domain containing proteins
Ensembl Y57G11A.3
Entrez Gene 3565923 Entrez gene
SwissProt O18220 EMBL-EBI
WormBase CE14912 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB16495 Hypothetical protein Y57G11A.3 [Caenorhabditis elegans] ref|NP_502756.1| Y57G11A.3 [Caenorhabditis elegans] 1.0E-154
blast CAB16495 Hypothetical protein Y57G11A.3 [Caenorhabditis elegans] ref|NP_502756.1| Y57G11A.3 [Caenorhabditis elegans] 1.0E-147
blast CAE73949 Hypothetical protein CBG21573 [Caenorhabditis briggsae] 1.0E-145
blast CAE73949 Hypothetical protein CBG21573 [Caenorhabditis briggsae] 1.0E-138
Protein Domains
Database ID Description E-Value
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 5.5E-12
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 5.5E-12
Sequence
Target Sequence 
>C. ELEGANS:192211_AT
gctcgccttgaagaacgtcagaagctaacggaaattggccaggagaaattctcaaagttc
aagacaaagtttgagaatatcgattcgacgatggatgaggatttagagcagaagctgaaa
agaatgcagaaggagcaaattggaggagttggaaaagagactttggctagtgccaaggag
agattcgaaaaaggtgaaagtgacattgtcgtagaaaaaaccgctgtggacattgagcga
agtgcggatttgtcaaaaatgaaagcagcattccaggaggtgaagcaggaagagaagaag
aactgttgcatctgtgataaagttgtatatccagtagaaaaagtgcttgccaacaagaat
ttataccatattcaatgcttcaagtgctgcaagtgcgccaagaaattgacgccaacgaat
ttcaactctcacgagggcaaacttttgtgtaaagtccacatgttggaagtgttccatccg
gaaattgcacacacaatggatccacagaatacggaagaagacgagcacgctgcctctgac
gaggaagaattcgcagtttccagtaagccaaagcagcttcaaggtgttgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCGCCTTGAAGAACGTCAGAAGC 398 299 283 Antisense
GAAGAAGAACTGTTGCATCTGTGAT 157 341 576 Antisense
GCTTCAAGTGCTGCAAGTGCGCCAA 556 305 659 Antisense
GTGCGCCAAGAAATTGACGCCAACG 88 477 675 Antisense
GACGCCAACGAATTTCAACTCTCAC 521 381 690 Antisense
AACTCTCACGAGGGCAAACTTTTGT 658 137 706 Antisense
GTTCCATCCGGAAATTGCACACACA 346 441 753 Antisense
ACGGAAGAAGACGAGCACGCTGCCT 502 95 793 Antisense
GCACGCTGCCTCTGACGAGGAAGAA 83 315 807 Antisense
GAATTCGCAGTTTCCAGTAAGCCAA 463 323 829 Antisense
GCCAAAGCAGCTTCAAGGTGTTGTC 456 277 849 Antisense
Sequence Source Affymetrix Proprietary Database