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[190905_at] Transthyretin-like family

Description F58A3.5 /REP_DB=WormBase Gene ID /WP=CE11360 /TR=Q93805 /GB=CAB02670.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 41      4grp_highest_8_8 > 08      4grp_high_8_8 > 53      6grp_highest_nonorm > 34      6grp_total > 42      4grp_total > 59      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4560
1 2 3 4 range
A 2378.3
(1.3)
P 		3212.1
(3)
P 		3039.9
(2.6)
P 		277.1
(-3)
P 		2935
B 2191.4
(-0.4)
P 		4798.9
(3)
P 		4065.7
(2)
P 		248.4
(-3)
P 		4551
C 2722.3
(0.7)
P 		4246.6
(3)
P 		3688.8
(2.2)
P 		238.9
(-3)
P 		4008
avr 2430.7
(0.4) 		4085.9
(3) 		3598.1
(2.2) 		254.8
(-3) 		3831

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3332
1 2 3 4 5 6 range
A 2274.6
(-0.1)
P 		2543.4
(0.4)
P 		3768.6
(3)
P 		2126.6
(-0.4)
P 		1452.4
(-1.9)
P 		911.5
(-3)
P 		2857
B 2981.2
(0.6)
P 		2715.1
(0.1)
P 		4243.1
(3)
P 		2713.3
(0.1)
P 		1572.7
(-2.1)
P 		1089.9
(-3)
P 		3153
C 2209.9
(0.6)
P 		2504.8
(1.6)
P 		2923.8
(3)
P 		2736.1
(2.4)
P 		1353.1
(-2.3)
P 		1154.1
(-3)
P 		1770
avr 2488.6
(0.3) 		2587.8
(0.6) 		3645.2
(3) 		2525.3
(0.4) 		1459.4
(-2.1) 		1051.8
(-3) 		2593
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1245
1 2 3 4 range
A 866
(3)
P 		697.3
(1.8)
P 		794.7
(2.5)
P 		40.6
(-3)
P 		825
B 698.8
(0.4)
P 		1185.2
(3)
P 		942.1
(1.7)
P 		52.9
(-3)
P 		1132
C 901.1
(1.1)
P 		1220.9
(2.7)
P 		1285.7
(3)
P 		40.3
(-3)
P 		1245
avr 822
(1.7) 		1034.5
(3) 		1007.5
(2.8) 		44.6
(-3) 		990

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 815
1 2 3 4 5 6 range
A 419.3
(-1.3)
P 		904.6
(3)
P 		820.7
(2.3)
P 		539.4
(-0.2)
P 		438.3
(-1.1)
P 		221.9
(-3)
P 		683
B 1037.3
(3)
P 		903.7
(1.7)
P 		1030.4
(2.9)
P 		718.7
(-0)
P 		639
(-0.8)
P 		406.4
(-3)
P 		631
C 819.1
(3)
P 		764.3
(2.2)
P 		744.2
(2)
P 		550.2
(-0.7)
P 		437.8
(-2.3)
P 		386.3
(-3)
P 		433
avr 758.6
(1.8) 		857.5
(2.9) 		865.1
(3) 		602.8
(0) 		505
(-1.1) 		338.2
(-3) 		527
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190905_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16355
Sequence Type Exemplar sequence
Representative Public ID F58A3.5 NCBI
Target Description F58A3.5 /REP_DB=WormBase Gene ID /WP=CE11360 /TR=Q93805 /GB=CAB02670.1 /SUBMIT=HINXTON /CHR=X /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_077438(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077438 NCBI Caenorhabditis elegans F58A3.5 (F58A3.5) mRNA, complete cds. 11/11 None
GENEFINDER00000041423 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11006343:11008975:-1 11/11 None
SNAP00000041415 ENSEMBL cdna:SNAP chromosome:CEL140:X:11007315:11008975:-1 11/11 None
F58A3.5 ENSEMBL cdna:known chromosome:CEL140:X:11008299:11008975:-1 gene:F58A3.5 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
chrX:11008298-11008975(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl F58A3.5
Entrez Gene 186484 Entrez gene
SwissProt Q93805 EMBL-EBI
WormBase CE11360 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02674 Hypothetical protein F59F3.4 [Caenorhabditis elegans] emb|CAA91993.2| Hypothetical protein F59F3.4 [Caenorhabditis elegans] ref|NP_509838.2| F59F3.4 [Caenorhabditis elegans] 1.0E-155
blast CAE70769 Hypothetical protein CBG17520 [Caenorhabditis briggsae] 1.0E-110
blast CAB02670 Hypothetical protein F58A3.5 [Caenorhabditis elegans] ref|NP_509839.1| F58A3.5 [Caenorhabditis elegans] 3.0E-83
blast CAB02674 Hypothetical protein F59F3.4 [Caenorhabditis elegans] emb|CAA91993.2| Hypothetical protein F59F3.4 [Caenorhabditis elegans] ref|NP_509838.2| F59F3.4 [Caenorhabditis elegans] 4.0E-80
blast CAB02670 Hypothetical protein F58A3.5 [Caenorhabditis elegans] ref|NP_509839.1| F58A3.5 [Caenorhabditis elegans] 4.0E-80
blast CAB02670 Hypothetical protein F58A3.5 [Caenorhabditis elegans] ref|NP_509839.1| F58A3.5 [Caenorhabditis elegans] 1.0E-78
blast CAE70768 Hypothetical protein CBG17519 [Caenorhabditis briggsae] 3.0E-75
blast CAE70768 Hypothetical protein CBG17519 [Caenorhabditis briggsae] 2.0E-72
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 6.6E-66
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.4E-5
Pfam IPR001534 EMBL-EBI Transthyretin-like 6.2E-61
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.4E-5
Pfam IPR001534 EMBL-EBI Transthyretin-like 1.4E-63
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000041423 1 240-262
SNAP00000041415 1 242-264
Sequence
Target Sequence 
>C. ELEGANS:190905_AT
atcacatttttaccgattctctgccttgcaattccgcttcccgatattcttccaaagctc
cctcaaatccgtaaagtacagtccacggctgtgaagggaaagttgttgtgtgatggaaaa
ggttatgaaaaggctcgtctgaagctgtatgaggtcgatcccatcaaggacacccttatg
tcagaagcactgactaacgaaaatggtgaattcgaactttctggtaatgacaccgaatgg
accaaaattgacccaaagctcaatatctatcacaattgccacgacgaggctattgaatgc
tggcgaaaagtggaaattgtgattccagacgatttcattacagaaggagagactccagct
aaaacctttgaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCACATTTTTACCGATTCTCTGCC 676 27 28 Antisense
GCTTCCCGATATTCTTCCAAAGCTC 476 305 63 Antisense
AGCTCCCTCAAATCCGTAAAGTACA 100 59 83 Antisense
AGTACAGTCCACGGCTGTGAAGGGA 444 59 102 Antisense
GAAAAGGCTCGTCTGAAGCTGTATG 500 353 154 Antisense
GAAGCTGTATGAGGTCGATCCCATC 348 343 168 Antisense
GATCCCATCAAGGACACCCTTATGT 288 417 184 Antisense
GACCCAAAGCTCAATATCTATCACA 657 381 277 Antisense
ATCTATCACAATTGCCACGACGAGG 382 31 292 Antisense
ACGACGAGGCTATTGAATGCTGGCG 282 93 308 Antisense
GAGACTCCAGCTAAAACCTTTGACA 457 393 376 Antisense
Sequence Source Affymetrix Proprietary Database