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[190830_at] Transthyretin-like family

Description T21C9.8 /REP_DB=WormBase Gene ID /WP=CE06477 /TR=Q22643 /GB=CAA97335.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 54      4grp_high_8_8 > 10      6grp_highest_nonorm > 40      6grp_total > 24      4grp_total > 22      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1627
1 2 3 4 range
A 1709.5
(3)
P 		726
(-1.2)
P 		301.3
(-3)
P 		1666.5
(2.8)
P 		1408
B 1917.5
(3)
P 		708.9
(-2)
P 		456.3
(-3)
P 		1927.8
(3)
P 		1472
C 1873.9
(2.9)
P 		696.9
(-2.1)
P 		479.6
(-3)
P 		1894.1
(3)
P 		1415
avr 1833.6
(3) 		710.6
(-1.7) 		412.4
(-3) 		1829.5
(3) 		1421

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 695
1 2 3 4 5 6 range
A 885.2
(3)
P 		734.3
(1.5)
P 		805.2
(2.2)
P 		453.3
(-1.3)
P 		311.6
(-2.7)
P 		282.5
(-3)
P 		603
B 914.6
(3)
P 		790
(1.7)
P 		632.6
(-0)
P 		476.4
(-1.7)
P 		354.9
(-3)
P 		399.2
(-2.5)
P 		560
C 977.2
(3)
P 		716.9
(0.4)
P 		507.7
(-1.6)
P 		399.1
(-2.7)
P 		368.6
(-3)
P 		395.3
(-2.7)
P 		609
avr 925.7
(3) 		747.1
(1.2) 		648.5
(0.1) 		442.9
(-2) 		345
(-3) 		359
(-2.9) 		581
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 544
1 2 3 4 range
A 622.4
(3)
P 		157.6
(-2.1)
P 		78.8
(-3)
P 		243.9
(-1.2)
P 		544
B 611.5
(3)
P 		175.1
(-2.2)
P 		105.7
(-3)
P 		410.8
(0.6)
P 		506
C 620.3
(3)
P 		200.4
(-2.6)
P 		167.1
(-3)
P 		319.4
(-1)
P 		453
avr 618.1
(3) 		177.7
(-2.3) 		117.2
(-3) 		324.7
(-0.5) 		501

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 293
1 2 3 4 5 6 range
A 163.2
(-0.1)
P 		261.2
(3)
P 		175.4
(0.3)
P 		115
(-1.6)
P 		94
(-2.2)
P 		68.8
(-3)
P 		192
B 318.2
(3)
P 		263
(1.3)
P 		153.6
(-2.1)
P 		126.2
(-3)
P 		144.2
(-2.4)
P 		148.9
(-2.3)
P 		192
C 362.2
(3)
P 		218.7
(-0.1)
P 		129.2
(-2)
P 		80.3
(-3)
P 		119.3
(-2.2)
P 		132.3
(-1.9)
P 		282
avr 281.2
(3) 		247.6
(1.8) 		152.7
(-1.4) 		107.2
(-3) 		119.2
(-2.6) 		116.7
(-2.7) 		174
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190830_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11912
Sequence Type Exemplar sequence
Representative Public ID T21C9.8 NCBI
Target Description T21C9.8 /REP_DB=WormBase Gene ID /WP=CE06477 /TR=Q22643 /GB=CAA97335.1 /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_073316(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073316 NCBI Caenorhabditis elegans T21C9.8 (T21C9.8) mRNA, complete cds. 11/11 None
SNAP00000011988 ENSEMBL cdna:SNAP chromosome:CEL140:V:10591793:10592440:-1 11/11 None
GENEFINDER00000011994 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10589749:10592440:-1 11/11 None
T21C9.8 ENSEMBL cdna:known chromosome:CEL140:V:10591672:10592471:-1 gene:T21C9.8 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:10591792-10592440(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl T21C9.8
Entrez Gene 188688 Entrez gene
SwissProt Q22643 EMBL-EBI
WormBase CE06477 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA97334 Hypothetical protein T21C9.7 [Caenorhabditis elegans] ref|NP_505716.2| Serpentine Receptor, class G (gamma) family member (srg-32) [Caenorhabditis elegans] 1.0E-170
blast CAE64853 Hypothetical protein CBG09649 [Caenorhabditis briggsae] 1.0E-111
blast CAA97335 Hypothetical protein T21C9.8 [Caenorhabditis elegans] ref|NP_505717.1| T21C9.8 [Caenorhabditis elegans] 1.0E-79
blast CAA97335 Hypothetical protein T21C9.8 [Caenorhabditis elegans] ref|NP_505717.1| T21C9.8 [Caenorhabditis elegans] 5.0E-76
blast CAE64854 Hypothetical protein CBG09650 [Caenorhabditis briggsae] 3.0E-54
blast CAB02900 Hypothetical protein F09F3.6 [Caenorhabditis elegans] ref|NP_506433.1| F09F3.6 [Caenorhabditis elegans] 2.0E-48
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 2.3E-58
Pfam IPR001534 EMBL-EBI Transthyretin-like 3.7E-55
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000011994 6 177-199,212-234,264-286,306-325,355-377,390-412
Sequence
Target Sequence 
>C. ELEGANS:190830_AT
gattcgaatcttattttttgctttattcttaacttctgcaaatgctatttttaatctgat
aggaagtgatcagtatgtgaccgtgacagggagattgatttgtgatggacagccggcatc
agatgttcttgtgaaattgtatgaagatggaacgatttacgacacaaagctcgactcaac
aagaaccagttacgatggaacattcagagtctctggacattatacaaaagtttttgatat
ggatccgaaagtgaatatttatcatagctgcaatcattacggtatgtgtgacaaaaagtt
gagaattgatattccacactacgcaatcaactctggtcaaaacttcggagtagacaacta
cgacattggaactttaaacctggcggatcaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTCGAATCTTATTTTTTGCTTTA 460 433 15 Antisense
TTTTTGCTTTATTCTTAACTTCTGC 372 675 29 Antisense
GTGATCAGTATGTGACCGTGACAGG 89 483 80 Antisense
TTGATTTGTGATGGACAGCCGGCAT 659 705 109 Antisense
GACAGCCGGCATCAGATGTTCTTGT 76 369 122 Antisense
GACACAAAGCTCGACTCAACAAGAA 152 367 175 Antisense
ACGATGGAACATTCAGAGTCTCTGG 464 93 206 Antisense
ATAGCTGCAATCATTACGGTATGTG 289 23 278 Antisense
ATATTCCACACTACGCAATCAACTC 310 19 323 Antisense
AATCAACTCTGGTCAAAACTTCGGA 183 169 339 Antisense
GGAACTTTAAACCTGGCGGATCAAT 557 529 382 Antisense
Sequence Source Affymetrix Proprietary Database