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[173562_s_at]

Description C50755 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T05B11.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50755 /WB_GENE_ID=T05B11.3 /WP=CE13219 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk524g8 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 29      4grp_highest_8_8 > 21      4grp_high_8_8 > 23      6grp_highest_nonorm > 76      6grp_total > 29      4grp_total > 16      6grp_cgc > 07      6grp_high1_sub > Cu      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1667
1 2 3 4 range
A 1152.8
(-3)
P 		1571.9
(0.2)
P 		1548.3
(-0)
P 		1946.8
(3)
P 		794
B 1074.3
(-3)
P 		1302.3
(-2.2)
P 		1634.5
(-1)
P 		2741.4
(3)
P 		1667
C 1171.9
(-3)
P 		1298.8
(-2.4)
P 		1741.7
(-0.4)
P 		2483.4
(3)
P 		1312
avr 1133
(-3) 		1391
(-1.8) 		1641.5
(-0.6) 		2390.5
(3) 		1258

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 996
1 2 3 4 5 6 range
A 824.7
(-3)
P 		1210.8
(1.7)
P 		1005.9
(-0.8)
P 		1322.4
(3)
P 		1081.4
(0.1)
P 		1246.8
(2.1)
P 		498
B 1111.9
(0.3)
P 		1153.1
(1.4)
P 		1210.8
(3)
P 		1046.4
(-1.5)
P 		1080.7
(-0.6)
P 		993.2
(-3)
P 		218
C 1653.4
(3)
P 		1046.9
(-0.7)
P 		1214.5
(0.4)
P 		657.4
(-3)
P 		1424.4
(1.6)
P 		1164.8
(0.1)
P 		996
avr 1196.7
(3) 		1136.9
(1.1) 		1143.7
(1.3) 		1008.7
(-3) 		1195.5
(3) 		1134.9
(1) 		188
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 322
1 2 3 4 range
A 419.7
(3)
P 		341.2
(-0.5)
P 		404.8
(2.3)
P 		285
(-3)
P 		135
B 342.6
(-2.5)
P 		321.7
(-3)
P 		378.7
(-1.7)
P 		584.2
(3)
P 		263
C 387.9
(-2.6)
P 		373.4
(-3)
P 		607
(3)
P 		418.7
(-1.8)
P 		234
avr 383.4
(-1.1) 		345.4
(-3) 		463.5
(3) 		429.3
(1.3) 		118

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 481
1 2 3 4 5 6 range
A 152
(-3)
P 		430.6
(3)
P 		219.1
(-1.6)
P 		335.4
(0.9)
P 		326.3
(0.8)
P 		303.6
(0.3)
P 		279
B 386.9
(1.1)
P 		383.8
(1)
P 		294
(-2.4)
P 		277.1
(-3)
P 		439.1
(3)
P 		370.4
(0.5)
P 		162
C 612.8
(3)
P 		319.5
(-0.7)
P 		309.1
(-0.8)
P 		132.2
(-3)
P 		460.9
(1.1)
P 		389.9
(0.2)
P 		481
avr 383.9
(2.1) 		378
(1.8) 		274.1
(-2) 		248.2
(-3) 		408.8
(3) 		354.6
(1) 		161
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173562_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25247
Sequence Type Exemplar sequence
Representative Public ID C50755 NCBI
Target Description C50755 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T05B11.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50755 /WB_GENE_ID=T05B11.3 /WP=CE13219 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk524g8 : 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_072598(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072598 NCBI Caenorhabditis elegans Clathrin LIght Chain family member (clic-1) (clic-1) mRNA, complete cds. 11/11 A 
SNAP00000037441 ENSEMBL cdna:SNAP chromosome:CEL140:V:7736528:7737477:-1 11/11 None
GENEFINDER00000037447 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7736528:7737477:-1 11/11 None
T05B11.3.1 ENSEMBL cdna:known chromosome:CEL140:V:7736214:7737613:-1 gene:T05B11.3 11/11 A 
T05B11.3.2 ENSEMBL cdna:known chromosome:CEL140:V:7736215:7737505:-1 gene:T05B11.3 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
chrV:7736247-7737479(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol clic-1
Ensembl T05B11.3
Entrez Gene 179150 Entrez gene
SwissProt P90961 EMBL-EBI
WormBase CE13219 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_504999 Clathrin LIght Chain family member (clic-1) [Caenorhabditis elegans] gb|AAB37069.1| Clathrin light chain protein 1 [Caenorhabditis elegans] 2.0E-71
blast CAE73198 Hypothetical protein CBG20601 [Caenorhabditis briggsae] 6.0E-62
Sequence
Target Sequence 
>C. ELEGANS:173562_S_AT
aactgtcccaagaattgaggctgaaaaaattcgactgtggaaagctcagcaagagcaact
tctttcgaaaaaagatgaagctgaagaaaagaaaaagattgaacttcgtgcaaatgccaa
gaaggagcttgaagagtggtataaacaacgcgagaagacccttcaattgtcacatgacga
aaatcggaaaaacgagaaatccaatcaagaacttttcgccaagcaacaagatggagatgc
tcaatgggaaacagtgaacaagctcgttgatcaacaaaaatcgaagagtggaaaggatct
gagtcgtctgaaaaccctgcttgctggtctgaaacat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTGTCCCAAGAATTGAGGCTGAA 252 141 346 Antisense
AATTCGACTGTGGAAAGCTCAGCAA 595 177 373 Antisense
GCTCAGCAAGAGCAACTTCTTTCGA 162 301 389 Antisense
AGATTGAACTTCGTGCAAATGCCAA 591 65 441 Antisense
ATAAACAACGCGAGAAGACCCTTCA 353 1 486 Antisense
AGACCCTTCAATTGTCACATGACGA 442 69 501 Antisense
AATCCAATCAAGAACTTTTCGCCAA 450 167 543 Antisense
GAACTTTTCGCCAAGCAACAAGATG 7 351 554 Antisense
GGGAAACAGTGAACAAGCTCGTTGA 349 493 591 Antisense
GAGTGGAAAGGATCTGAGTCGTCTG 145 401 631 Antisense
AACCCTGCTTGCTGGTCTGAAACAT 369 145 658 Antisense
Sequence Source Affymetrix Proprietary Database