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[191702_at] Transthyretin-like family

Description K03H1.6 /REP_DB=WormBase Gene ID /WP=CE00476 /TR=SW:P34502 /GB=CAA82658.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 73      4grp_high_8_8 > 05      6grp_highest_nonorm > 72      6grp_total > 63      4grp_total > 03      6grp_cgc > 66      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1473
1 2 3 4 range
A 287.2
(-2.4)
P 		163.4
(-3)
A 		153.6
(-3)
A 		1446.9
(3)
P 		1293
B 349.8
(-2)
P 		148.5
(-3)
A 		154.4
(-3)
M 		1383.1
(3)
P 		1235
C 319.8
(-2.3)
P 		151.1
(-3)
P 		167.9
(-2.9)
P 		1621.3
(3)
P 		1470
avr 318.9
(-2.3) 		154.3
(-3) 		158.6
(-3) 		1483.8
(3) 		1330

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 389
1 2 3 4 5 6 range
A 333.2
(-2.2)
P 		280.7
(-3)
P 		670.1
(3)
P 		467.4
(-0.1)
P 		369.7
(-1.6)
P 		350.1
(-1.9)
P 		389
B 357.4
(-2.5)
P 		342.8
(-3)
P 		520.5
(3)
P 		486.7
(1.9)
P 		380.7
(-1.7)
P 		480.7
(1.7)
P 		178
C 296.6
(-3)
P 		324
(-2.3)
P 		388.6
(-0.5)
P 		505.5
(2.6)
P 		402.6
(-0.1)
P 		518.6
(3)
P 		222
avr 329.1
(-2.6) 		315.8
(-3) 		526.4
(3) 		486.5
(1.9) 		384.3
(-1) 		449.8
(0.8) 		211
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 259
1 2 3 4 range
A 104.6
(-0.6)
P 		35.5
(-3)
A 		40.1
(-2.8)
A 		211.8
(3)
P 		176
B 111.5
(-1.2)
P 		36.7
(-3)
A 		35.8
(-3)
M 		294.7
(3)
P 		259
C 105.9
(-1.4)
P 		43.4
(-3)
P 		58.5
(-2.6)
P 		273.4
(3)
P 		230
avr 107.3
(-1.1) 		38.5
(-3) 		44.8
(-2.8) 		260
(3) 		222

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 61.4
(-3)
P 		99.8
(-0.3)
P 		145.9
(3)
P 		118.5
(1.1)
P 		111.5
(0.6)
P 		85.2
(-1.3)
P 		85
B 124.4
(-2.1)
P 		114.1
(-3)
P 		126.4
(-1.9)
P 		128.9
(-1.6)
P 		154.7
(0.7)
P 		179.2
(3)
P 		65
C 110
(-2.1)
P 		98.9
(-3)
P 		98.9
(-3)
P 		101.7
(-2.8)
P 		130.3
(-0.5)
P 		173.6
(3)
P 		75
avr 98.6
(-3) 		104.3
(-2.3) 		123.7
(0.2) 		116.4
(-0.7) 		132.2
(1.3) 		146
(3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191702_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7640
Sequence Type Exemplar sequence
Representative Public ID K03H1.6 NCBI
Target Description K03H1.6 /REP_DB=WormBase Gene ID /WP=CE00476 /TR=SW:P34502 /GB=CAA82658.1 /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_066803(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066803 NCBI Caenorhabditis elegans K03H1.6 (K03H1.6) mRNA, complete cds. 11/11 None
GENEFINDER00000019359 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9928995:9939441:1 11/11 None
K03H1.6 ENSEMBL cdna:known chromosome:CEL140:III:9928995:9930269:1 gene:K03H1.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019342 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:9928990-9930265(+) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Gene Symbol ttr-1
Ensembl K03H1.6
Entrez Gene 186958 Entrez gene
SwissProt P34502 EMBL-EBI
WormBase CE00476 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA82664 Hypothetical protein K03H1.5 [Caenorhabditis elegans] ref|NP_499205.1| K03H1.5 [Caenorhabditis elegans] sp|P34501|YMS5_CAEEL Hypothetical protein K03H1.5 in chromosome III precursor 0.0
blast S41028 hypothetical protein K03H1.4 - Caenorhabditis elegans 0.0
blast CAE65083 Hypothetical protein CBG09941 [Caenorhabditis briggsae] 0.0
blast CAA82658 Hypothetical protein K03H1.6 [Caenorhabditis elegans] ref|NP_499204.1| K03H1.6 [Caenorhabditis elegans] sp|P34502|YMS6_CAEEL Hypothetical UPF0205 protein K03H1.6 in chromosome III precursor 1.0E-84
blast CAE65085 Hypothetical protein CBG09943 [Caenorhabditis briggsae] 2.0E-55
blast CAE65086 Hypothetical protein CBG09944 [Caenorhabditis briggsae] 2.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR010362 EMBL-EBI Nid 1.1E-35
Pfam IPR005533 EMBL-EBI AMOP domain 5.9E-96
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 3.1E-14
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 7.7E-9
Pfam IPR001534 EMBL-EBI Transthyretin-like 1.4E-56
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 4.5E-6
Pfam IPR001534 EMBL-EBI Transthyretin-like 8.5E-63
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000019359 1 1392-1414
Sequence
Target Sequence 
>C. ELEGANS:191702_AT
attgcactgagtttcttatttctaacttcaactttttcaaatgctggaaaaattggccgt
cttcaatcagttgcggtgagcggacaattaaactgccttggtaaaccggcagtgggagta
cgtatcgacttgatggagtcagacaataatggtgaagagacgggaattattgatgacaat
gattttatgggatatacctatactgactcggctggattctttaatatgagtggttcagaa
gttgagatttctggtattgaaccatatgtgaacatttttcataaatgcaatgatggattg
tcgccttgccaacgtcaactccgtgtcgacattccaaaatcagctacagcttcgggacct
gcaccaaatgaaacattctctattggaacattggagttatcttctcgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGCACTGAGTTTCTTATTTCTAA 198 7 19 Antisense
TTGGCCGTCTTCAATCAGTTGCGGT 708 705 71 Antisense
GAGCGGACAATTAAACTGCCTTGGT 358 385 96 Antisense
ACCGGCAGTGGGAGTACGTATCGAC 454 1 123 Antisense
GGGATATACCTATACTGACTCGGCT 319 495 207 Antisense
TACTGACTCGGCTGGATTCTTTAAT 641 645 219 Antisense
CAATGATGGATTGTCGCCTTGCCAA 118 183 306 Antisense
AACTCCGTGTCGACATTCCAAAATC 608 141 335 Antisense
AAATCAGCTACAGCTTCGGGACCTG 554 117 355 Antisense
GAAACATTCTCTATTGGAACATTGG 556 355 388 Antisense
GGAACATTGGAGTTATCTTCTCGAA 534 529 403 Antisense
Sequence Source Affymetrix Proprietary Database