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[190610_s_at] Transthyretin-like family

Description JC8.8 /REP_DB=WormBase Gene ID /WP=CE17992 /TR=O62289 /GB=CAB05225.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 68      6grp_high1_10_10 > 96      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 49      6grp_total > 86      4grp_total > 05      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3752
1 2 3 4 range
A 3438
(-1.1)
P 		2918.9
(-2)
P 		2283.9
(-3)
P 		5927.4
(3)
P 		3644
B 4017.8
(0.7)
P 		2358.2
(-3)
P 		2560
(-2.5)
P 		5033
(3)
P 		2675
C 3473.8
(-0.6)
P 		2240
(-2.9)
P 		2175.1
(-3)
P 		5475.5
(3)
P 		3300
avr 3643.2
(-0.5) 		2505.7
(-2.7) 		2339.7
(-3) 		5478.6
(3) 		3139

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3945
1 2 3 4 5 6 range
A 4323.6
(-0.2)
P 		2972
(-3)
P 		5920.5
(3)
P 		4360.6
(-0.2)
P 		5418.8
(2)
P 		5722.6
(2.6)
P 		2949
B 4596.6
(-1.8)
P 		4036
(-3)
P 		5718.6
(0.5)
P 		4342.9
(-2.4)
P 		6297.6
(1.7)
P 		6916.6
(3)
P 		2881
C 3588.6
(-3)
P 		3734.8
(-2.7)
P 		3701.5
(-2.8)
P 		4959.6
(-0.2)
P 		4896.5
(-0.3)
P 		6486.7
(3)
P 		2898
avr 4169.6
(-1.7) 		3580.9
(-3) 		5113.5
(0.3) 		4554.4
(-0.9) 		5537.6
(1.2) 		6375.3
(3) 		2794
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 699
1 2 3 4 range
A 1251.8
(3)
P 		633.6
(-2.7)
P 		597.1
(-3)
P 		867.6
(-0.5)
P 		655
B 1281.2
(3)
P 		582.4
(-3)
P 		593.2
(-2.9)
P 		1072.5
(1.2)
P 		699
C 1149.9
(3)
P 		644
(-3)
P 		758.1
(-1.6)
P 		923.2
(0.3)
P 		506
avr 1227.6
(3) 		620
(-3) 		649.5
(-2.7) 		954.4
(0.3) 		608

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1782
1 2 3 4 5 6 range
A 797
(-3)
P 		1057
(-1.1)
P 		1289.4
(0.5)
P 		1106
(-0.8)
P 		1635.1
(3)
P 		1393.3
(1.3)
P 		838
B 1599.4
(-1.1)
P 		1343.4
(-2.2)
P 		1388.6
(-2)
P 		1150.3
(-3)
P 		2558.6
(2.9)
P 		2579.2
(3)
P 		1429
C 1330.1
(-1.1)
P 		1139.6
(-2)
P 		942.1
(-3)
P 		997.4
(-2.7)
P 		1584.4
(0.1)
P 		2171.5
(3)
P 		1229
avr 1242.2
(-2) 		1180
(-2.4) 		1206.7
(-2.2) 		1084.6
(-3) 		1926
(2.2) 		2048
(3) 		963
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190610_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8680
Sequence Type Exemplar sequence
Representative Public ID JC8.8 NCBI
Target Description JC8.8 /REP_DB=WormBase Gene ID /WP=CE17992 /TR=O62289 /GB=CAB05225.1 /SUBMIT=HINXTON /CHR=4 /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_070148(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070148 NCBI Caenorhabditis elegans JC8.8 (JC8.8) mRNA, complete cds. 11/11 None
SNAP00000009002 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13244221:13252280:-1 11/11 None
GENEFINDER00000009012 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13250688:13252280:-1 11/11 None
JC8.8.1 ENSEMBL cdna:known chromosome:CEL140:IV:13250170:13252280:-1 gene:JC8.8 11/11 None
JC8.8.2 ENSEMBL cdna:known chromosome:CEL140:IV:13250648:13252282:-1 gene:JC8.8 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
chrIV:13250693-13252336(-) 97.29 97.29
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl JC8.8
Entrez Gene 178282 Entrez gene
SwissProt O62289 EMBL-EBI
WormBase CE33800 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05225 Hypothetical protein JC8.8 [Caenorhabditis elegans] ref|NP_502549.2| JC8.8 [Caenorhabditis elegans] 7.0E-65
blast CAB05225 Hypothetical protein JC8.8 [Caenorhabditis elegans] ref|NP_502549.2| JC8.8 [Caenorhabditis elegans] 8.0E-65
blast CAE58634 Hypothetical protein CBG01802 [Caenorhabditis briggsae] 6.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 1.1E-62
Pfam IPR001534 EMBL-EBI Transthyretin-like 2.1E-65
Sequence
Target Sequence 
>C. ELEGANS:190610_S_AT
gaagtacacttttcttctactctgcgccattttcggctgcactttggccatgagacaaca
gtcagtcgccgtctcaggcaaattaatgtgcggaagtaagccagcctcaggagtaaaagt
gaagctatgggatgaagatgatggtccagatccagatgatgttcttgacgagggattcac
aaataatgatggaacattccgtcttgaaggatccgaacgtgaattgacaaatatcgatcc
agtgttcaaagtgtatcatgattgtgatgatggaattattccaggacaaagaaaaatcaa
attccgtattccaaacaagtacatctcggctggtggacgtgctcagaaaaccttcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTACACTTTTCTTCTACTCTGC 279 337 78 Antisense
CATTTTCGGCTGCACTTTGGCCATG 630 215 105 Antisense
GGCCATGAGACAACAGTCAGTCGCC 32 545 123 Antisense
TCAGTCGCCGTCTCAGGCAAATTAA 111 613 139 Antisense
TGCGGAAGTAAGCCAGCCTCAGGAG 277 579 166 Antisense
GGTCCAGATCCAGATGATGTTCTTG 32 503 220 Antisense
GGAACATTCCGTCTTGAAGGATCCG 93 529 268 Antisense
AATATCGATCCAGTGTTCAAAGTGT 310 171 307 Antisense
ATCAAATTCCGTATTCCAAACAAGT 395 25 373 Antisense
AAGTACATCTCGGCTGGTGGACGTG 581 157 394 Antisense
GTGGACGTGCTCAGAAAACCTTCGA 397 489 410 Antisense
Sequence Source Affymetrix Proprietary Database