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[190564_at] Transthyretin-like family

Description R90.3 /REP_DB=WormBase Gene ID /WP=CE06327 /TR=Q22035 /GB=CAA99913.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 4grp_high_8_8 > 13      6grp_total > 27      4grp_total > 11      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 413
1 2 3 4 range
A 147.4
(-1.6)
P 		152.3
(-1.6)
P 		56.9
(-3)
A 		458.5
(3)
P 		402
B 201.3
(-0.9)
P 		212.4
(-0.7)
P 		60
(-3)
A 		459.7
(3)
P 		400
C 182.7
(-2.1)
P 		184
(-2.1)
P 		132.6
(-3)
P 		469.7
(3)
P 		337
avr 177.1
(-1.5) 		182.9
(-1.4) 		83.2
(-3) 		462.6
(3) 		379

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 67.1
(3)
A 		46.1
(0.8)
A 		65.8
(2.9)
A 		41.8
(0.3)
A 		49.8
(1.2)
A 		9.9
(-3)
A 		57
B 68.2
(1.3)
A 		91.8
(3)
A 		31.4
(-1.2)
A 		6.3
(-3)
A 		37.6
(-0.8)
A 		66.8
(1.2)
A 		86
C 63
(1.6)
P 		59.5
(1.4)
A 		5
(-3)
A 		33.2
(-0.7)
A 		48.2
(0.5)
A 		80.1
(3)
P 		75
avr 66.1
(3) 		65.8
(3) 		34.1
(-1.9) 		27.1
(-3) 		45.2
(-0.2) 		52.3
(0.9) 		39
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 84
1 2 3 4 range
A 53.7
(1.5)
P 		33.1
(-0.9)
P 		14.9
(-3)
A 		67.1
(3)
P 		52
B 64.2
(0.6)
P 		52.5
(-0.2)
P 		13.9
(-3)
A 		98
(3)
P 		84
C 60.5
(-0.4)
P 		52.9
(-1.8)
P 		46.2
(-3)
P 		79.2
(3)
P 		33
avr 59.5
(0.7) 		46.2
(-0.7) 		25
(-3) 		81.4
(3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 12.4
(1.3)
A 		16.4
(3)
A 		14.3
(2.1)
A 		10.6
(0.5)
A 		15
(2.4)
A 		2.4
(-3)
A 		14
B 23.7
(1.6)
A 		30.6
(3)
A 		7.6
(-1.8)
A 		1.7
(-3)
A 		15.3
(-0.2)
A 		24.9
(1.8)
A 		29
C 23.3
(2.2)
P 		18.2
(1)
A 		1.3
(-3)
A 		6.7
(-1.7)
A 		15.6
(0.4)
A 		26.8
(3)
P 		26
avr 19.8
(2.3) 		21.7
(3) 		7.7
(-2.5) 		6.3
(-3) 		15.3
(0.5) 		18
(1.6) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190564_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12873
Sequence Type Exemplar sequence
Representative Public ID R90.3 NCBI
Target Description R90.3 /REP_DB=WormBase Gene ID /WP=CE06327 /TR=Q22035 /GB=CAA99913.1 /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_073825(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073825 NCBI Caenorhabditis elegans R90.3 (R90.3) mRNA, complete cds. 11/11 None
SNAP00000036528 ENSEMBL cdna:SNAP chromosome:CEL140:V:12906900:12907746:-1 11/11 None
R90.3 ENSEMBL cdna:known chromosome:CEL140:V:12906900:12907662:-1 gene:R90.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000036530 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12906899-12907662(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl R90.3
Entrez Gene 187889 Entrez gene
SwissProt Q22035 EMBL-EBI
WormBase CE06327 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA99913 Hypothetical protein R90.3 [Caenorhabditis elegans] ref|NP_506226.1| R90.3 [Caenorhabditis elegans] 4.0E-64
blast CAA99912 Hypothetical protein R90.4 [Caenorhabditis elegans] ref|NP_506227.1| R90.4 [Caenorhabditis elegans] 2.0E-51
blast CAE64720 Hypothetical protein CBG09506 [Caenorhabditis briggsae] 8.0E-51
blast CAE64720 Hypothetical protein CBG09506 [Caenorhabditis briggsae] 9.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 2.1E-72
Pfam IPR001534 EMBL-EBI Transthyretin-like 2.1E-72
Sequence
Target Sequence 
>C. ELEGANS:190564_AT
caatcagctgctgtatcaggaagattgatttgtaacgggagacctgcggttgatgtgaag
cttaaattgtatgaaaacgaaatatttttcgatcgattgatggaggaggggcgtactgat
tcgaacggtcaatttcgagtgttaggatcgaaaagagaaatcacaactattgacccaaag
ctaaatgtttatcacaaatgcaattacaacgggctatgtgatcaaaaattcacaattcac
attccaaaggactacgtcacttccggtagtcaaccatcacgaacttttgacattggcaca
ttgaacttggccaacaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATCAGCTGCTGTATCAGGAAGAT 70 181 16 Antisense
GTAACGGGAGACCTGCGGTTGATGT 282 457 47 Antisense
GAGGGGCGTACTGATTCGAACGGTC 72 401 121 Antisense
GAACGGTCAATTTCGAGTGTTAGGA 481 347 138 Antisense
GAAATCACAACTATTGACCCAAAGC 235 363 172 Antisense
GCAATTACAACGGGCTATGTGATCA 209 323 215 Antisense
AATTCACAATTCACATTCCAAAGGA 49 177 242 Antisense
CAAAGGACTACGTCACTTCCGGTAG 222 191 260 Antisense
CTTCCGGTAGTCAACCATCACGAAC 491 219 275 Antisense
CACGAACTTTTGACATTGGCACATT 291 199 293 Antisense
GGCACATTGAACTTGGCCAACAACT 281 535 310 Antisense
Sequence Source Affymetrix Proprietary Database