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[190940_at] Transthyretin-like family

Description F11F1.7 /REP_DB=WormBase Gene ID /WP=CE15807 /TR=O45349 /GB=CAB02929.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_total > 78      4grp_total > 02      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 221
1 2 3 4 range
A 23.2
(-3)
A 		21.6
(-3)
A 		32.1
(-2.7)
A 		236
(3)
P 		214
B 25.6
(-3)
P 		52
(-1.9)
A 		46.9
(-2.1)
M 		166.3
(3)
P 		141
C 28
(-2.4)
A 		14.9
(-3)
A 		25.4
(-2.5)
A 		151.3
(3)
P 		136
avr 25.6
(-3) 		29.5
(-2.9) 		34.8
(-2.7) 		184.5
(3) 		159

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 7.3
(-3)
A 		24.6
(-0.8)
A 		36.9
(0.7)
A 		23.9
(-0.9)
A 		42.9
(1.5)
A 		55.3
(3)
P 		48
B 32.4
(-0.4)
A 		29
(-0.8)
A 		17.1
(-2.1)
A 		8.9
(-3)
A 		32.5
(-0.4)
M 		63.3
(3)
P 		54
C 35.9
(-0.4)
A 		25.4
(-1.3)
A 		5.3
(-3)
A 		33
(-0.6)
A 		36.6
(-0.3)
P 		74.8
(3)
P 		70
avr 25.2
(-2.3) 		26.3
(-2.1) 		19.8
(-3) 		21.9
(-2.7) 		37.3
(-0.7) 		64.5
(3) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 8.4
(-2.3)
A 		4.7
(-3)
A 		8.4
(-2.3)
A 		34.5
(3)
P 		30
B 8.2
(-3)
P 		12.9
(-2)
A 		10.9
(-2.4)
M 		35.4
(3)
P 		27
C 9.3
(-1.6)
A 		4.3
(-3)
A 		8.8
(-1.7)
A 		25.5
(3)
P 		21
avr 8.6
(-2.7) 		7.3
(-3) 		9.4
(-2.5) 		31.8
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 1.3
(-3)
A 		8.7
(0.6)
A 		8
(0.3)
A 		6.1
(-0.6)
A 		12.9
(2.7)
A 		13.5
(3)
P 		12
B 11.3
(-0.5)
A 		9.7
(-0.9)
A 		4.2
(-2.5)
A 		2.4
(-3)
A 		13.2
(0.1)
M 		23.6
(3)
P 		21
C 13.3
(0)
A 		7.7
(-1.4)
A 		1.3
(-3)
A 		6.6
(-1.7)
A 		11.8
(-0.3)
P 		25
(3)
P 		24
avr 8.6
(-1.5) 		8.7
(-1.4) 		4.5
(-3) 		5
(-2.8) 		12.6
(0) 		20.7
(3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190940_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6931
Sequence Type Exemplar sequence
Representative Public ID F11F1.7 NCBI
Target Description F11F1.7 /REP_DB=WormBase Gene ID /WP=CE15807 /TR=O45349 /GB=CAB02929.1 /SUBMIT=HINXTON /CHR=3 /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_067366(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067366 NCBI Caenorhabditis elegans F11F1.7 (F11F1.7) mRNA, complete cds. 11/11 None
SNAP00000021815 ENSEMBL cdna:SNAP chromosome:CEL140:III:13404197:13405161:1 9/11 None
F11F1.7 ENSEMBL cdna:known chromosome:CEL140:III:13404166:13404708:1 gene:F11F1.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000021816 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:13404161-13404704(+) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl F11F1.7
Entrez Gene 184363 Entrez gene
SwissProt O45349 EMBL-EBI
WormBase CE15807 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB02929 Hypothetical protein F11F1.7 [Caenorhabditis elegans] ref|NP_499767.1| F11F1.7 [Caenorhabditis elegans] 8.0E-80
blast CAB02929 Hypothetical protein F11F1.7 [Caenorhabditis elegans] ref|NP_499767.1| F11F1.7 [Caenorhabditis elegans] 4.0E-41
blast CAE73703 Hypothetical protein CBG21215 [Caenorhabditis briggsae] 2.0E-35
blast CAE73703 Hypothetical protein CBG21215 [Caenorhabditis briggsae] 3.0E-35
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 6.8E-17
Pfam IPR001534 EMBL-EBI Transthyretin-like 6.8E-17
Sequence
Target Sequence 
>C. ELEGANS:190940_AT
agataggagtccatgatgttcccccaggggagtctcttcaacccccacgcattccttata
ctccaatattctccaacaaaagactttcaaaacatatgtcgagatttttgatttacttcc
tgccttttttcatttattcagggaacgttttatcaaaaactagttgtcttatggcaactg
gagtcttaaaatgcccaacagatcctgaagctgttaaaaaagtgcatatcgatttgtggg
atgaagattcattacctctagaatcggatgacttgatgggtcgaacatggagcgaccgta
acgggaatttccaagtgactggttgtgcaagtgactttggtccaattaatacacctgatc
catatttatatattcaacacaattgcccacatcgtgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATAGGAGTCCATGATGTTCCCCC 681 63 29 Antisense
TGTTCCCCCAGGGGAGTCTCTTCAA 660 559 45 Antisense
ACGCATTCCTTATACTCCAATATTC 542 91 75 Antisense
AGATTTTTGATTTACTTCCTGCCTT 27 67 130 Antisense
GAGTCTTAAAATGCCCAACAGATCC 485 397 209 Antisense
CATTACCTCTAGAATCGGATGACTT 437 215 278 Antisense
GAACATGGAGCGACCGTAACGGGAA 421 349 311 Antisense
GGAATTTCCAAGTGACTGGTTGTGC 160 531 332 Antisense
GGTTGTGCAAGTGACTTTGGTCCAA 58 509 349 Antisense
GTCCAATTAATACACCTGATCCATA 270 477 368 Antisense
TCAACACAATTGCCCACATCGTGAT 668 629 402 Antisense
Sequence Source Affymetrix Proprietary Database