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[190996_at] Transthyretin-like family

Description F09F3.6 /REP_DB=WormBase Gene ID /WP=CE09289 /TR=O17776 /GB=CAB02900.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 12      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 14      6grp_total > 14      4grp_total > 45      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2306
1 2 3 4 range
A 3438.9
(3)
P 		2685.3
(1)
P 		1170.4
(-3)
P 		1373.3
(-2.5)
P 		2269
B 3329.2
(3)
P 		2142.7
(-0.2)
P 		1132.7
(-3)
P 		1808.1
(-1.2)
P 		2197
C 3396.9
(3)
P 		2283.5
(-0.4)
P 		1408.8
(-3)
P 		1637.1
(-2.3)
P 		1988
avr 3388.3
(3) 		2370.5
(0.2) 		1237.3
(-3) 		1606.2
(-2) 		2151

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5169
1 2 3 4 5 6 range
A 4833.8
(3)
P 		3946.9
(1.6)
P 		4209
(2)
P 		3191.7
(0.4)
P 		1876
(-1.7)
P 		1054.5
(-3)
P 		3779
B 5490.1
(3)
P 		4785.3
(2)
P 		3967.7
(0.9)
P 		2826.9
(-0.7)
P 		2264.6
(-1.5)
P 		1227.8
(-3)
P 		4262
C 6223.3
(3)
P 		4870.2
(1.3)
P 		3131.8
(-0.8)
P 		3310
(-0.6)
P 		1922.1
(-2.3)
P 		1345.1
(-3)
P 		4878
avr 5515.7
(3) 		4534.1
(1.6) 		3769.5
(0.6) 		3109.5
(-0.4) 		2020.9
(-1.9) 		1209.1
(-3) 		4307
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1051
1 2 3 4 range
A 1252.1
(3)
P 		582.9
(-0.8)
P 		306
(-2.4)
P 		201
(-3)
P 		1051
B 1061.7
(3)
P 		529.2
(-1)
P 		262.5
(-3)
P 		385.3
(-2.1)
P 		799
C 1124.5
(3)
P 		656.5
(-0.3)
P 		491
(-1.5)
P 		276
(-3)
P 		849
avr 1146.1
(3) 		589.5
(-0.9) 		353.2
(-2.5) 		287.4
(-3) 		859

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2050
1 2 3 4 5 6 range
A 891.1
(0.3)
P 		1403.7
(3)
P 		916.6
(0.5)
P 		809.5
(-0.1)
P 		566.1
(-1.4)
P 		256.7
(-3)
P 		1147
B 1910.3
(3)
P 		1592.8
(1.7)
P 		963.5
(-0.9)
P 		748.8
(-1.8)
P 		920.1
(-1.1)
P 		457.8
(-3)
P 		1453
C 2306.7
(3)
P 		1486
(0.3)
P 		797.1
(-1.9)
P 		665.6
(-2.3)
P 		622
(-2.4)
P 		450.3
(-3)
P 		1856
avr 1702.7
(3) 		1494.2
(2) 		892.4
(-0.7) 		741.3
(-1.4) 		702.7
(-1.6) 		388.3
(-3) 		1314
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190996_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12577
Sequence Type Exemplar sequence
Representative Public ID F09F3.6 NCBI
Target Description F09F3.6 /REP_DB=WormBase Gene ID /WP=CE09289 /TR=O17776 /GB=CAB02900.1 /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_074032(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074032 NCBI Caenorhabditis elegans F09F3.6 (F09F3.6) mRNA, complete cds. 11/11 None
SNAP00000022393 ENSEMBL cdna:SNAP chromosome:CEL140:V:13856487:13856975:-1 11/11 None
GENEFINDER00000022399 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13856487:13856975:-1 11/11 None
F09F3.6 ENSEMBL cdna:known chromosome:CEL140:V:13856204:13856993:-1 gene:F09F3.6 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:13856486-13856975(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl F09F3.6
Entrez Gene 184253 Entrez gene
SwissProt O17776 EMBL-EBI
WormBase CE09289 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB02900 Hypothetical protein F09F3.6 [Caenorhabditis elegans] ref|NP_506433.1| F09F3.6 [Caenorhabditis elegans] 9.0E-79
blast CAE66224 Hypothetical protein CBG11466 [Caenorhabditis briggsae] 2.0E-68
blast CAE75425 Hypothetical protein CBG23418 [Caenorhabditis briggsae] 4.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 7.1E-62
Sequence
Target Sequence 
>C. ELEGANS:190996_AT
atgacattgatttctctgacactacttgtcgcgtttctcgttttcgctcaactttccgat
gctgtcttaaatgttgttggaagtactcagactattactgtaactggaagattagtgtgt
caaggacaaccagctagaaatgttcttgtgaagatgtatgaggatggaaccatatgggat
tctaaattggattcaacaaaatcagcaaatgacggaacctttcgagttgctggaacctac
acaaaaatctttacattggaccccaaagtaaacatctaccatcagtgcaattacaacgga
ctttgctccaaaaaattgactattaatattcctgactacgcagttgccagtggttccgga
tcttctacaaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGACATTGATTTCTCTGACACTAC 420 45 13 Antisense
CTCTGACACTACTTGTCGCGTTTCT 97 231 26 Antisense
TCAACTTTCCGATGCTGTCTTAAAT 112 629 60 Antisense
ATGACGGAACCTTTCGAGTTGCTGG 501 43 221 Antisense
TTCGAGTTGCTGGAACCTACACAAA 358 693 233 Antisense
GGACCCCAAAGTAAACATCTACCAT 640 523 270 Antisense
AACATCTACCATCAGTGCAATTACA 75 139 283 Antisense
CAATTACAACGGACTTTGCTCCAAA 648 179 300 Antisense
GACTATTAATATTCCTGACTACGCA 310 373 330 Antisense
TGACTACGCAGTTGCCAGTGGTTCC 92 571 345 Antisense
AGTGGTTCCGGATCTTCTACAAATT 139 57 361 Antisense
Sequence Source Affymetrix Proprietary Database