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[173402_s_at] Transthyretin-like family

Description AU114599_rc /REP_DB=TREMBL Accession /GB=AU114599 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk721b3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 40      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 28      6grp_total > 53      4grp_total > 49      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3354
1 2 3 4 range
A 9275.7
(-0.2)
P 		9676.9
(1.1)
P 		10223.9
(3)
P 		8458.3
(-3)
P 		1766
B 8114.7
(-3)
P 		11120.9
(2.4)
P 		11468.8
(3)
P 		10268.5
(0.9)
P 		3354
C 8936.2
(-3)
P 		10752.3
(3)
P 		10375.9
(1.8)
P 		9341.7
(-1.7)
P 		1816
avr 8775.5
(-3) 		10516.7
(2.5) 		10689.5
(3) 		9356.2
(-1.2) 		1914

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7744
1 2 3 4 5 6 range
A 9182.7
(-1.5)
P 		10458.1
(-0.5)
P 		14946.8
(3)
P 		11576.9
(0.4)
P 		7310.4
(-3)
P 		9716.4
(-1.1)
P 		7636
B 10702.5
(-1)
P 		10488.5
(-1.2)
P 		15054.1
(3)
P 		9644.5
(-2)
P 		8753.8
(-2.8)
P 		8564.4
(-3)
P 		6490
C 11144.6
(-0.6)
P 		9861.6
(-2.6)
P 		13462.7
(3)
P 		10928.7
(-0.9)
P 		9584.1
(-3)
P 		9950.5
(-2.4)
P 		3879
avr 10343.3
(-1.2) 		10269.4
(-1.3) 		14487.9
(3) 		10716.7
(-0.8) 		8549.4
(-3) 		9410.4
(-2.1) 		5939
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2378
1 2 3 4 range
A 3377.3
(3)
P 		2100.6
(-0.6)
P 		2672.7
(1)
P 		1238.1
(-3)
P 		2139
B 2587.7
(1.3)
P 		2746.6
(3)
P 		2657.6
(2)
P 		2188.2
(-3)
P 		558
C 2958.1
(1.1)
P 		3091.4
(1.5)
P 		3616.3
(3)
P 		1575.2
(-3)
P 		2041
avr 2974.4
(3) 		2646.2
(1.5) 		2982.2
(3) 		1667.2
(-3) 		1315

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2438
1 2 3 4 5 6 range
A 1692.8
(-3)
P 		3719.4
(3)
P 		3255.1
(1.6)
P 		2936.2
(0.7)
P 		2206
(-1.5)
P 		2365.6
(-1)
P 		2027
B 3723.9
(3)
P 		3491.2
(1.8)
P 		3655.6
(2.6)
P 		2554.5
(-3)
P 		3556.6
(2.1)
P 		3193.6
(0.3)
P 		1169
C 4130.8
(3)
P 		3009.1
(-0.5)
P 		3426.5
(0.8)
P 		2197.8
(-3)
P 		3101.3
(-0.2)
P 		3331
(0.5)
P 		1933
avr 3182.5
(1.2) 		3406.6
(2.7) 		3445.7
(3) 		2562.8
(-3) 		2954.6
(-0.3) 		2963.4
(-0.3) 		883
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173402_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28013
Sequence Type Exemplar sequence
Representative Public ID AU114599 NCBI
Target Description AU114599_rc /REP_DB=TREMBL Accession /GB=AU114599 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk721b3 : 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_066884(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066884 NCBI Caenorhabditis elegans T07C4.5 (T07C4.5) mRNA, complete cds. 11/11 None
SNAP00000030156 ENSEMBL cdna:SNAP chromosome:CEL140:III:10337759:10339136:1 11/11 None
GENEFINDER00000030167 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10337759:10339136:1 11/11 None
T07C4.5.2 ENSEMBL cdna:known chromosome:CEL140:III:10337406:10339227:1 gene:T07C4.5 11/11 None
T07C4.5.1 ENSEMBL cdna:known chromosome:CEL140:III:10337744:10339227:1 gene:T07C4.5 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
chrIII:10337861-10339133(+) 92.58 92.58
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl T07C4.5
Entrez Gene 176448 Entrez gene
SwissProt Q22288 EMBL-EBI
WormBase CE03639 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA82574 Hypothetical protein T07C4.5 [Caenorhabditis elegans] ref|NP_499285.1| T07C4.5 [Caenorhabditis elegans] sp|Q22288|YNS5_CAEEL Hypothetical UPF0205 protein T07C4.5 protein in chromosome III precursor 9.0E-69
blast CAE56793 Hypothetical protein CBG24605 [Caenorhabditis briggsae] 9.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 1.8E-41
Sequence
Target Sequence 
>C. ELEGANS:173402_S_AT
tcaggcggaggttaccctttgggagaaagatactctcgaccccgatgacaagctcgcctc
aatgcaatcgaacaaagaaggagagttctcacttaccggatccgacgacgagatcacctc
aatctctccatacctcataatcacccacaactgcaacgtgaagaaggccggatgcaagcg
tgtttcagagtatttgattccaaaggagaagatcggtggaacctatgatatgacatacgt
cactcttgatattctttccgctaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGGCGGAGGTTACCCTTTGGGAG 280 605 16 Antisense
TGGGAGAAAGATACTCTCGACCCCG 341 553 35 Antisense
CAAGCTCGCCTCAATGCAATCGAAC 445 185 64 Antisense
GAAGGAGAGTTCTCACTTACCGGAT 670 331 92 Antisense
CTCACTTACCGGATCCGACGACGAG 595 225 103 Antisense
ACGACGAGATCACCTCAATCTCTCC 491 91 120 Antisense
CATAATCACCCACAACTGCAACGTG 218 209 151 Antisense
AACTGCAACGTGAAGAAGGCCGGAT 179 139 164 Antisense
AAGGCCGGATGCAAGCGTGTTTCAG 675 157 179 Antisense
ATGACATACGTCACTCTTGATATTC 183 45 245 Antisense
CACTCTTGATATTCTTTCCGCTAAA 504 197 256 Antisense
Sequence Source Affymetrix Proprietary Database