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[173412_s_at] Transthyretin-like family

Description AU113026_rc /REP_DB=TREMBL Accession /GB=AU113026 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk701g5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 51      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 35      6grp_total > 62      4grp_total > 03      6grp_highest_sub > 04      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3270
1 2 3 4 range
A 2154.5
(-2)
P 		1793.5
(-3)
P 		1857.9
(-2.8)
P 		4019.3
(3)
P 		2226
B 2051.5
(-2.8)
P 		2202.1
(-2.5)
P 		1933.2
(-3)
P 		5063.8
(3)
P 		3131
C 2716.7
(-1.3)
P 		2283.6
(-2.3)
P 		2002.2
(-3)
P 		4516.4
(3)
P 		2514
avr 2307.6
(-2.1) 		2093.1
(-2.6) 		1931.1
(-3) 		4533.2
(3) 		2602

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2839
1 2 3 4 5 6 range
A 2321.3
(-2.1)
P 		2601.8
(-1.5)
P 		4722.1
(3)
P 		3748.5
(0.9)
P 		3010.5
(-0.6)
P 		1883.4
(-3)
P 		2839
B 2987.5
(-0.4)
P 		3042
(-0.1)
P 		3223.4
(0.7)
P 		3730.8
(3)
P 		3601.8
(2.4)
P 		2407.6
(-3)
P 		1323
C 2685.4
(-1.5)
P 		3419.9
(2.5)
P 		3511.6
(3)
P 		3081
(0.7)
P 		3003.1
(0.3)
P 		2399.3
(-3)
P 		1112
avr 2664.7
(-1.4) 		3021.2
(-0) 		3819
(3) 		3520.1
(1.9) 		3205.1
(0.7) 		2230.1
(-3) 		1589
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 690
1 2 3 4 range
A 784.4
(3)
P 		389.3
(-3)
P 		485.7
(-1.5)
P 		588.3
(0)
P 		395
B 654.2
(-1)
P 		543.9
(-2.1)
P 		448
(-3)
P 		1079.1
(3)
P 		631
C 899.3
(3)
P 		656.6
(-3)
P 		697.8
(-2)
P 		761.5
(-0.4)
P 		243
avr 779.3
(2.4) 		529.9
(-3) 		543.8
(-2.7) 		809.6
(3) 		280

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1036
1 2 3 4 5 6 range
A 427.9
(-3)
P 		925.3
(2)
P 		1028.4
(3)
P 		950.7
(2.2)
P 		908.4
(1.8)
P 		458.6
(-2.7)
P 		601
B 1039.5
(-0.7)
P 		1012.6
(-1)
P 		782.7
(-3)
P 		988.2
(-1.2)
P 		1463.4
(3)
P 		897.8
(-2)
P 		681
C 995.4
(2.3)
P 		1043.5
(3)
P 		893.8
(0.9)
P 		619.6
(-3)
P 		971.8
(2)
P 		803.2
(-0.4)
P 		424
avr 820.9
(-1.5) 		993.8
(1.2) 		901.6
(-0.2) 		852.8
(-1) 		1114.5
(3) 		719.9
(-3) 		395
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173412_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27874
Sequence Type Exemplar sequence
Representative Public ID AU113026 NCBI
Target Description AU113026_rc /REP_DB=TREMBL Accession /GB=AU113026 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk701g5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_075227(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075227 NCBI Caenorhabditis elegans Y51A2D.9 (Y51A2D.9) mRNA, complete cds. 11/11 A 
GENEFINDER00000034277 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18558036:18559128:-1 11/11 None
Y51A2D.9.1 ENSEMBL cdna:known chromosome:CEL140:V:18557937:18559182:-1 gene:Y51A2D.9 11/11 A 
Y51A2D.9.2 ENSEMBL cdna:known chromosome:CEL140:V:18558036:18559539:-1 gene:Y51A2D.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
chrV:18558033-18559003(-) 97.1 97.1
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl Y51A2D.9
Entrez Gene 180209 Entrez gene
SwissProt Q9XXR4 EMBL-EBI
WormBase CE19205 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16399 Hypothetical protein Y51A2D.9 [Caenorhabditis elegans] ref|NP_507628.1| Y51A2D.9 [Caenorhabditis elegans] 7.0E-77
blast CAE67417 Hypothetical protein CBG12905 [Caenorhabditis briggsae] 1.0E-67
blast CAA16408 Hypothetical protein Y51A2D.10 [Caenorhabditis elegans] ref|NP_507629.1| Y51A2D.10 [Caenorhabditis elegans] 1.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 2.9E-54
Sequence
Target Sequence 
>C. ELEGANS:173412_S_AT
gaggatggaactatctacgacacgaaaatggactcggtgaaaacaattgctgatggaaca
ttcaaggtctcgggatcccagaataaaatccgcaagattgacccgaaaatcaatatttat
nataaaatcaactattctggactctgcccnnnnnnngtgactattcatgttccaannaat
gcagttggtaaaggatccaaagaagctcaacttttcgacatcggaaccctcaatttggct
aacagatacccaggagag

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGATGGAACTATCTACGACACGA 5 403 35 Antisense
CTACGACACGAAAATGGACTCGGTG 445 223 49 Antisense
TGGACTCGGTGAAAACAATTGCTGA 72 547 63 Antisense
GCTGATGGAACATTCAAGGTCTCGG 340 295 83 Antisense
CATTCAAGGTCTCGGGATCCCAGAA 656 207 93 Antisense
GGGATCCCAGAATAAAATCCGCAAG 481 493 106 Antisense
AATCCGCAAGATTGACCCGAAAATC 116 167 121 Antisense
GAAGCTCAACTTTTCGACATCGGAA 80 343 236 Antisense
GACATCGGAACCCTCAATTTGGCTA 567 369 251 Antisense
GGAACCCTCAATTTGGCTAACAGAT 178 529 257 Antisense
TTTGGCTAACAGATACCCAGGAGAG 276 663 268 Antisense
Sequence Source Affymetrix Proprietary Database