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[191625_s_at] Transthyretin-like family /// Transthyretin-like family

Description K03H1.3 /REP_DB=WormBase Gene ID /WP=CE00506 /TR=SW:P34499 /GB=CAA82656.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 98      4grp_high_8_8 > 46      6grp_highest_nonorm > 93      6grp_total > 97      4grp_total > 50      6grp_highest_sub > In      6grp_cgc > 69      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 248
1 2 3 4 range
A 164.4
(-3)
P 		387.2
(3)
P 		292.3
(0.4)
P 		182.9
(-2.5)
A 		223
B 139.6
(-3)
P 		363.3
(3)
P 		313.4
(1.7)
P 		170.6
(-2.2)
P 		224
C 152.8
(-3)
P 		365.1
(3)
P 		337
(2.2)
P 		193.6
(-1.8)
A 		212
avr 152.3
(-3) 		371.9
(3) 		314.2
(1.4) 		182.4
(-2.2) 		220

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 580
1 2 3 4 5 6 range
A 269.8
(-2.2)
P 		220.3
(-3)
P 		365.1
(-0.8)
P 		331.6
(-1.3)
P 		524.8
(1.7)
P 		610.4
(3)
P 		390
B 205.8
(-3)
P 		266.7
(-2.3)
P 		377
(-0.9)
P 		354.5
(-1.2)
P 		598
(1.8)
P 		696.7
(3)
P 		491
C 298.9
(-2.6)
P 		266.5
(-3)
P 		321.3
(-2.4)
P 		367.6
(-1.8)
P 		621.7
(1.1)
P 		785.3
(3)
P 		519
avr 258.2
(-2.9) 		251.2
(-3) 		354.5
(-1.6) 		351.2
(-1.7) 		581.5
(1.4) 		697.5
(3) 		446
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 59.9
(0.5)
P 		84
(3)
P 		76.4
(2.2)
P 		26.8
(-3)
A 		57
B 44.5
(-2.1)
P 		89.7
(3)
P 		72.6
(1.1)
P 		36.4
(-3)
P 		53
C 50.6
(-1.7)
P 		105
(2.1)
P 		117.4
(3)
P 		32.6
(-3)
A 		85
avr 51.7
(-1.1) 		92.9
(3) 		88.8
(2.6) 		31.9
(-3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 213
1 2 3 4 5 6 range
A 49.7
(-3)
P 		78.4
(-1.4)
P 		79.5
(-1.4)
P 		84.1
(-1.1)
P 		158.4
(3)
P 		148.6
(2.5)
P 		109
B 71.6
(-3)
P 		88.8
(-2.5)
P 		91.5
(-2.4)
P 		93.9
(-2.3)
P 		243
(2.5)
P 		259.8
(3)
P 		188
C 110.8
(-1.8)
P 		81.3
(-2.8)
P 		81.8
(-2.7)
P 		73.9
(-3)
P 		201.2
(1)
P 		262.9
(3)
P 		189
avr 77.4
(-3) 		82.8
(-2.8) 		84.3
(-2.7) 		84
(-2.7) 		200.9
(2.1) 		223.8
(3) 		146
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191625_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7440
Sequence Type Exemplar sequence
Representative Public ID K03H1.3 NCBI
Target Description K03H1.3 /REP_DB=WormBase Gene ID /WP=CE00506 /TR=SW:P34499 /GB=CAA82656.1 /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_066801(11), NM_066797(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066801 NCBI Caenorhabditis elegans K03H1.3 (K03H1.3) mRNA, complete cds. 11/11 None
NM_066797 NCBI Caenorhabditis elegans F40F12.1 (F40F12.1) mRNA, complete cds. 11/11 None
SNAP00000019340 ENSEMBL cdna:SNAP chromosome:CEL140:III:9925522:9926497:-1 11/11 None
GENEFINDER00000019356 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9925522:9926497:-1 11/11 None
SNAP00000010928 ENSEMBL cdna:SNAP chromosome:CEL140:III:9916081:9916532:-1 11/11 None
GENEFINDER00000010935 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9916081:9919959:-1 11/11 None
F40F12.1 ENSEMBL cdna:known chromosome:CEL140:III:9916081:9916961:-1 gene:F40F12.1 11/11 None
K03H1.3 ENSEMBL cdna:known chromosome:CEL140:III:9925522:9926497:-1 gene:K03H1.3 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
chrIII:9925517-9926493(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Transthyretin-like family
Gene Symbol sdz-17
Ensembl F40F12.1
K03H1.3
Entrez Gene 185549 Entrez gene
186957 Entrez gene
SwissProt Q7JMS9 EMBL-EBI
P34499 EMBL-EBI
WormBase CE00616 Wormbase
CE00506 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA82935 Hypothetical protein F40F12.3 [Caenorhabditis elegans] ref|NP_499200.1| F40F12.3 [Caenorhabditis elegans] pir||S42832 F40F12.3 protein - Caenorhabditis elegans 1.0E-132
blast CAA82656 Hypothetical protein K03H1.3 [Caenorhabditis elegans] ref|NP_499202.1| K03H1.3 [Caenorhabditis elegans] sp|P34499|YMS3_CAEEL Hypothetical UPF0205 protein K03H1.3 in chromosome III precursor 2.0E-81
blast CAE65087 Hypothetical protein CBG09945 [Caenorhabditis briggsae] 5.0E-71
blast CAA82933 Hypothetical protein F40F12.1 [Caenorhabditis elegans] ref|NP_499198.1| F40F12.1 [Caenorhabditis elegans] pir||S42830 F40F12.1 protein - Caenorhabditis elegans 6.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 5.3E-71
Pfam IPR001534 EMBL-EBI Transthyretin-like 8.3E-69
Pfam IPR001534 EMBL-EBI Transthyretin-like 4.6E-63
Pfam IPR001534 EMBL-EBI Transthyretin-like 8.1E-68
Sequence
Target Sequence 
>C. ELEGANS:191625_S_AT
gtgtgaaggaaggcctgcatcgggagtgaaagtcaaattaatggaatctgacaatagttt
cctgccgggatttcttgacagagatgataagatggcatcaggaaaggctgactcaaatgg
agaattcaatttgagtggatctaccaaggaaatcaccggaatcgagccatatttggctgt
tttccatgattgtaaggacggaattacgccgtgccaaagagtcctccgcatcaatattcc
aaaatcttacgccaactggggaagttctgcagagaaaacatttaatgctggaaatctcga
acttgctggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTGAAGGAAGGCCTGCATCGGGA 48 487 114 Antisense
AGGCCTGCATCGGGAGTGAAAGTCA 522 53 124 Antisense
ATCTGACAATAGTTTCCTGCCGGGA 513 33 159 Antisense
TTTCCTGCCGGGATTTCTTGACAGA 264 669 171 Antisense
GCCATATTTGGCTGTTTTCCATGAT 575 281 279 Antisense
GTAAGGACGGAATTACGCCGTGCCA 640 457 305 Antisense
GAATTACGCCGTGCCAAAGAGTCCT 397 179 314 Antisense
CAAAGAGTCCTCCGCATCAATATTC 371 193 328 Antisense
ATATTCCAAAATCTTACGCCAACTG 14 19 347 Antisense
ACGCCAACTGGGGAAGTTCTGCAGA 33 91 362 Antisense
GCTGGAAATCTCGAACTTGCTGGAA 67 295 400 Antisense
Sequence Source Affymetrix Proprietary Database