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[190473_at] Transthyretin-like family

Description R90.2 /REP_DB=WormBase Gene ID /WP=CE06326 /TR=Q22032 /GB=CAA99910.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 21      4grp_highest_8_8 > 04      4grp_high_8_8 > 29      6grp_highest_nonorm > 52      6grp_total > 32      4grp_total > 34      6grp_high1_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 887
1 2 3 4 range
A 589.5
(-3)
P 		1253
(3)
P 		978.5
(0.5)
P 		1242.8
(2.9)
P 		664
B 526.4
(-3)
P 		1413.4
(3)
P 		758.7
(-1.4)
P 		1103.7
(0.9)
P 		887
C 597.2
(-3)
P 		1346.2
(3)
P 		855.1
(-0.9)
P 		1066.1
(0.8)
P 		749
avr 571
(-3) 		1337.5
(3) 		864.1
(-0.7) 		1137.5
(1.4) 		767

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 497
1 2 3 4 5 6 range
A 386.7
(-2.6)
P 		581.2
(-0.3)
P 		854.3
(3)
P 		811.1
(2.5)
P 		357.5
(-3)
P 		366.3
(-2.9)
P 		497
B 631.9
(0.6)
P 		663.6
(1.1)
P 		797.3
(3)
P 		455.7
(-2)
P 		577.9
(-0.2)
P 		384.9
(-3)
P 		412
C 843.9
(3)
P 		697.2
(1)
P 		616.3
(-0.2)
P 		567.8
(-0.9)
P 		636
(0.1)
P 		413.8
(-3)
P 		430
avr 620.8
(0.8) 		647.3
(1.2) 		756
(3) 		611.5
(0.6) 		523.8
(-0.8) 		388.3
(-3) 		368
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 219
1 2 3 4 range
A 214.6
(-0.8)
P 		272
(3)
P 		255.8
(1.9)
P 		181.9
(-3)
P 		90
B 167.9
(-3)
P 		349.1
(3)
P 		175.8
(-2.7)
P 		235.2
(-0.8)
P 		181
C 197.7
(-2.5)
P 		387
(3)
P 		298
(0.4)
P 		179.8
(-3)
P 		207
avr 193.4
(-3) 		336
(3) 		243.2
(-0.9) 		199
(-2.8) 		143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 242
1 2 3 4 5 6 range
A 71.3
(-3)
P 		206.7
(3)
P 		186
(2.1)
P 		205.7
(3)
P 		107.9
(-1.4)
P 		89.2
(-2.2)
P 		135
B 219.9
(2.2)
P 		220.9
(2.3)
P 		193.6
(0.8)
P 		120.7
(-3)
P 		234.8
(3)
P 		143.5
(-1.8)
P 		114
C 312.8
(3)
P 		212.7
(-0)
P 		156.9
(-1.7)
P 		114.2
(-3)
P 		205.8
(-0.2)
P 		138.5
(-2.3)
P 		199
avr 201.3
(2.2) 		213.4
(3) 		178.8
(0.7) 		146.9
(-1.4) 		182.8
(1) 		123.7
(-3) 		90
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190473_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12762
Sequence Type Exemplar sequence
Representative Public ID R90.2 NCBI
Target Description R90.2 /REP_DB=WormBase Gene ID /WP=CE06326 /TR=Q22032 /GB=CAA99910.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Transthyretin-like family
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_073824(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073824 NCBI Caenorhabditis elegans R90.2 (R90.2) mRNA, complete cds. 11/11 None
SNAP00000036527 ENSEMBL cdna:SNAP chromosome:CEL140:V:12906195:12906673:-1 11/11 None
GENEFINDER00000036530 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12906195:12907758:-1 11/11 None
R90.2 ENSEMBL cdna:known chromosome:CEL140:V:12906140:12906688:-1 gene:R90.2 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
chrV:12906194-12906673(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl R90.2
Entrez Gene 179769 Entrez gene
SwissProt Q22032 EMBL-EBI
WormBase CE06326 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA99910 Hypothetical protein R90.2 [Caenorhabditis elegans] ref|NP_506225.1| R90.2 [Caenorhabditis elegans] 8.0E-78
blast CAA99910 Hypothetical protein R90.2 [Caenorhabditis elegans] ref|NP_506225.1| R90.2 [Caenorhabditis elegans] 4.0E-77
blast CAE64722 Hypothetical protein CBG09508 [Caenorhabditis briggsae] 1.0E-69
blast CAE64722 Hypothetical protein CBG09508 [Caenorhabditis briggsae] 6.0E-69
blast CAE65875 Hypothetical protein CBG11024 [Caenorhabditis briggsae] 4.0E-65
blast CAE61464 Hypothetical protein CBG05356 [Caenorhabditis briggsae] 2.0E-48
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 3.1E-74
Pfam IPR001534 EMBL-EBI Transthyretin-like 2.8E-41
Pfam IPR001534 EMBL-EBI Transthyretin-like 3.1E-74
Sequence
Target Sequence 
>C. ELEGANS:190473_AT
ttttgctatttgctcttgtttctacaagttatgctctattgggtgttggccgaacacagt
cagttgctgtatctggaagagttatctgtaatggacaaccagcatctggagttaaactga
agctttatgaaaaagaatcaacctttgatgtacttttggaagaagcaacttcagatgcca
atggacaattccgactatctggatcaaaaactgaaatttcaactattgatccaaaattga
acatttatcacaaatgcaattacaatggtctctgctacaaaaagattggaatcactattc
cagataattatgtttcatctggaaagactccaagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTGCTATTTGCTCTTGTTTCTAC 346 677 38 Antisense
TTGTTTCTACAAGTTATGCTCTATT 268 707 53 Antisense
ATGCTCTATTGGGTGTTGGCCGAAC 449 41 68 Antisense
GTTGGCCGAACACAGTCAGTTGCTG 584 435 82 Antisense
GTCAGTTGCTGTATCTGGAAGAGTT 183 467 96 Antisense
ATGGACAACCAGCATCTGGAGTTAA 698 45 128 Antisense
ATCAACCTTTGATGTACTTTTGGAA 289 27 174 Antisense
GAAGCAACTTCAGATGCCAATGGAC 248 341 199 Antisense
GGACAATTCCGACTATCTGGATCAA 438 527 220 Antisense
AATGCAATTACAATGGTCTCTGCTA 502 165 290 Antisense
GTTTCATCTGGAAAGACTCCAAGCA 653 449 349 Antisense
Sequence Source Affymetrix Proprietary Database