[Home] | [Total List]

[192439_s_at]

Description T04C9.4C /REP_DB=WormBase Gene ID /WP=CE26620 /TR=Q9GP95 /GB=AAG38887.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=contains LIM-like binding domain
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 60      6grp_total > 16      4grp_total > 54      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 476
1 2 3 4 range
A 570.7
(3)
P 		348.7
(-0.2)
P 		300.2
(-0.9)
P 		150.2
(-3)
P 		421
B 546.3
(3)
P 		350.6
(-0.2)
P 		255.2
(-1.7)
P 		174.2
(-3)
P 		372
C 608.4
(3)
P 		349.2
(-0.3)
P 		325.2
(-0.6)
P 		132.5
(-3)
P 		476
avr 575.1
(3) 		349.5
(-0.2) 		293.5
(-1) 		152.3
(-3) 		423

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 596
1 2 3 4 5 6 range
A 595.5
(3)
P 		507.3
(1.8)
P 		393.8
(0.4)
P 		263.1
(-1.4)
P 		138.8
(-3)
P 		193.3
(-2.3)
P 		457
B 735.2
(3)
P 		543.3
(0.8)
P 		410.6
(-0.7)
P 		256
(-2.5)
P 		212.7
(-3)
P 		254.8
(-2.5)
P 		523
C 691.6
(3)
P 		444.7
(0.2)
P 		303.7
(-1.5)
P 		169
(-3)
P 		220.3
(-2.4)
P 		296.4
(-1.5)
P 		523
avr 674.1
(3) 		498.4
(0.8) 		369.4
(-0.8) 		229.4
(-2.5) 		190.6
(-3) 		248.2
(-2.3) 		484
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 186
1 2 3 4 range
A 207.8
(3)
P 		75.7
(-1.3)
P 		78.5
(-1.2)
P 		22
(-3)
P 		186
B 174.2
(3)
P 		86.6
(-0.8)
P 		59.1
(-2)
P 		37.1
(-3)
P 		137
C 201.4
(3)
P 		100.4
(-0.4)
P 		113.3
(0)
P 		22.3
(-3)
P 		179
avr 194.5
(3) 		87.6
(-0.8) 		83.6
(-1) 		27.1
(-3) 		167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 222
1 2 3 4 5 6 range
A 109.8
(-0.1)
P 		180.4
(3)
P 		85.8
(-1.1)
P 		66.7
(-1.9)
P 		41.9
(-3)
P 		47.1
(-2.8)
P 		139
B 255.8
(3)
P 		180.9
(0.6)
P 		99.7
(-2)
P 		67.8
(-3)
P 		86.4
(-2.4)
P 		95
(-2.1)
P 		188
C 256.3
(3)
P 		135.7
(-0.3)
P 		77.3
(-1.8)
P 		34
(-3)
P 		71.3
(-2)
P 		99.2
(-1.2)
P 		222
avr 207.3
(3) 		165.7
(1.3) 		87.6
(-1.8) 		56.2
(-3) 		66.5
(-2.6) 		80.4
(-2) 		151
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192439_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7145
Sequence Type Exemplar sequence
Representative Public ID T04C9.4C NCBI
Target Description T04C9.4C /REP_DB=WormBase Gene ID /WP=CE26620 /TR=Q9GP95 /GB=AAG38887.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=contains LIM-like binding domain
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_065900(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065900 NCBI Caenorhabditis elegans MLP/CRP family (Muscle LIM Protein/Cysteine-rich Protein) family member (mlp-1) (mlp-1) mRNA, complete cds. 11/11 A 
SNAP00000027250 ENSEMBL cdna:SNAP chromosome:CEL140:III:5972754:5973604:-1 11/11 None
GENEFINDER00000027259 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5972754:5973604:-1 11/11 None
T04C9.4c ENSEMBL cdna:known chromosome:CEL140:III:5971665:5973604:-1 gene:T04C9.4 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175847 3 1 NM_065900 192439_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5971663-5973764(-) 100.0 100.0
Public Domain and Genome References
Ensembl T04C9.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM97946 Mlp/crp family (muscle lim protein/cysteine-rich protein) protein 1, isoform c [Caenorhabditis elegans] ref|NP_498301.2| MLP/CRP family (Muscle LIM Protein/Cysteine-rich Protein) family member (mlp-1) [Caenorhabditis elegans] 1.0E-101
blast CAE64344 Hypothetical protein CBG09030 [Caenorhabditis briggsae] 3.0E-95
blast T25858 hypothetical protein T04C9.4 - Caenorhabditis elegans 4.0E-65
blast AAM97946 Mlp/crp family (muscle lim protein/cysteine-rich protein) protein 1, isoform c [Caenorhabditis elegans] ref|NP_498301.2| MLP/CRP family (Muscle LIM Protein/Cysteine-rich Protein) family member (mlp-1) [Caenorhabditis elegans] 2.0E-54
blast T25858 hypothetical protein T04C9.4 - Caenorhabditis elegans 5.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 6.7E-14
Sequence
Target Sequence 
>C. ELEGANS:192439_S_AT
tattggattcaatgtcatgctgtgaacatcaagcacaactcttctgtaagcagtgtcatt
gcaggcgatatgggccaaagggaatcggtttcggaatcggcgccggatcattgacaatgg
atactggagaacaatttggaaatactgaagttgatatgacgttagtcaatgtttcatgtt
tt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTGGATTCAATGTCATGCTGTGA 470 663 218 Antisense
ATGTCATGCTGTGAACATCAAGCAC 262 47 229 Antisense
GAACATCAAGCACAACTCTTCTGTA 703 349 241 Antisense
GCACAACTCTTCTGTAAGCAGTGTC 343 317 250 Antisense
GTAAGCAGTGTCATTGCAGGCGATA 255 463 263 Antisense
GTGTCATTGCAGGCGATATGGGCCA 553 485 270 Antisense
TATGGGCCAAAGGGAATCGGTTTCG 543 545 286 Antisense
GGAATCGGTTTCGGAATCGGCGCCG 373 533 298 Antisense
TCGGCGCCGGATCATTGACAATGGA 480 607 314 Antisense
TACTGAAGTTGATATGACGTTAGTC 20 613 360 Antisense
GACGTTAGTCAATGTTTCATGTTTT 228 377 375 Antisense
Sequence Source Affymetrix Proprietary Database