[Home] | [Total List]

[176497_s_at]

Description Y54F10AM.F /REP_DB=WormBase Gene ID /WP=CE26174 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_high1_10_10 > 57      4grp_high_8_8 > 63      6grp_total > 85      4grp_total > 56      6grp_high1_sub > Cu      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 247
1 2 3 4 range
A 160.1
(-0.5)
P 		225.7
(2.1)
P 		247.6
(3)
P 		99.3
(-3)
P 		148
B 134
(-2.6)
P 		151.3
(-1.5)
P 		225.4
(3)
P 		127.4
(-3)
P 		98
C 138.8
(-2.6)
P 		168.8
(-1.8)
M 		345.9
(3)
P 		123.3
(-3)
M 		223
avr 144.3
(-1.9) 		181.9
(-0.5) 		273
(3) 		116.7
(-3) 		156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 192
1 2 3 4 5 6 range
A 15
(-3)
A 		154.1
(1.3)
P 		192
(2.5)
P 		207.4
(3)
P 		112.1
(0)
P 		179.9
(2.1)
P 		192
B 140.7
(2)
P 		144.5
(2.5)
P 		101.8
(-3)
P 		148.7
(3)
P 		123.1
(-0.3)
P 		122
(-0.4)
P 		47
C 163.4
(2.2)
P 		122.7
(-0.9)
P 		104.2
(-2.3)
P 		95.7
(-3)
P 		173.6
(3)
P 		159.1
(1.9)
P 		78
avr 106.4
(-3) 		140.4
(1.3) 		132.7
(0.3) 		150.6
(2.6) 		136.3
(0.8) 		153.7
(3) 		47
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 106
1 2 3 4 range
A 58.3
(2.2)
P 		49
(1.1)
P 		64.7
(3)
P 		14.5
(-3)
P 		50
B 42.7
(0.7)
P 		37.4
(-0.5)
P 		52.2
(3)
P 		27.1
(-3)
P 		25
C 45.9
(-1.5)
P 		48.5
(-1.3)
M 		120.6
(3)
P 		20.8
(-3)
M 		100
avr 49
(-0.1) 		45
(-0.5) 		79.2
(3) 		20.8
(-3) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 2.8
(-3)
A 		54.8
(3)
P 		41.8
(1.5)
P 		52.6
(2.7)
P 		33.8
(0.6)
P 		43.8
(1.7)
P 		52
B 48.9
(2.7)
P 		48.1
(2.5)
P 		24.7
(-3)
P 		39.4
(0.5)
P 		50
(3)
P 		45.5
(1.9)
P 		25
C 60.5
(3)
P 		37.4
(-0.4)
P 		26.5
(-1.9)
P 		19.2
(-3)
P 		56.2
(2.4)
P 		53.2
(1.9)
P 		41
avr 37.4
(-0.7) 		46.8
(2.7) 		31
(-3) 		37.1
(-0.8) 		46.7
(2.7) 		47.5
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176497_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18912
Sequence Type Exemplar sequence
Representative Public ID Y54F10AM.F NCBI
Target Description Y54F10AM.F /REP_DB=WormBase Gene ID /WP=CE26174 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_065166(11), NM_065167(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065166 NCBI Caenorhabditis elegans Y54F10AL.1a (Y54F10AL.1) mRNA, complete cds. 11/11 A 
NM_065167 NCBI Caenorhabditis elegans Y54F10AL.1b (Y54F10AL.1) mRNA, complete cds. 11/11 A 
SNAP00000034917 ENSEMBL cdna:SNAP chromosome:CEL140:III:2489084:2494707:1 11/11 None
GENEFINDER00000034935 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2489084:2493942:1 11/11 None
Y54F10AL.1b ENSEMBL cdna:known chromosome:CEL140:III:2487757:2491921:1 gene:Y54F10AL.1 11/11 A 
Y54F10AL.1a ENSEMBL cdna:known chromosome:CEL140:III:2487762:2494248:1 gene:Y54F10AL.1 11/11 A 
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:2490999-2492921(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y54F10AL.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK27882 Hypothetical protein Y54F10AL.1a [Caenorhabditis elegans] ref|NP_497567.1| Y54F10AL.1a [Caenorhabditis elegans] 1.0E-117
blast CAE69473 Hypothetical protein CBG15669 [Caenorhabditis briggsae] 1.0E-111
blast AAK27883 Hypothetical protein Y54F10AL.1b [Caenorhabditis elegans] ref|NP_497568.1| Y54F10AL.1b [Caenorhabditis elegans] 1.0E-101
blast AAK27883 Hypothetical protein Y54F10AL.1b [Caenorhabditis elegans] ref|NP_497568.1| Y54F10AL.1b [Caenorhabditis elegans] 3.0E-89
blast AAK27882 Hypothetical protein Y54F10AL.1a [Caenorhabditis elegans] ref|NP_497567.1| Y54F10AL.1a [Caenorhabditis elegans] 3.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 3.2E-8
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 2.1E-31
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 2.3E-38
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 1.5E-29
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 2.3E-38
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 7.4E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497567.1 4 100-122,129-151,236-258,265-287
NP_497568.1 4 5-22,63-82,99-121,125-144
Y54F10AL.1b 4 5-22,63-82,99-121,125-144
Y54F10AL.1a 4 100-122,129-151,236-258,265-287
SNAP00000034917 3 20-39,94-116,131-153
GENEFINDER00000034935 2 185-207,214-236
Sequence
Target Sequence 
>C. ELEGANS:176497_S_AT
agctcaagctgaagttgcaaaacgtgaaggagagcttgacgccgggaaatttgaaatgct
cgaaggcggtggtggagttgcttctcaaagcgaaacgcgtaaaatcttcctgttcacatc
acgaatcttcattgaagccttctcattgacatttgttgccgaatggggagatcgatcaca
gcttaccactattat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCAAGCTGAAGTTGCAAAACGT 426 77 66 Antisense
GAAGGAGAGCTTGACGCCGGGAAAT 186 335 91 Antisense
TGAAATGCTCGAAGGCGGTGGTGGA 184 573 117 Antisense
GCGGTGGTGGAGTTGCTTCTCAAAG 214 293 131 Antisense
GTTGCTTCTCAAAGCGAAACGCGTA 632 437 142 Antisense
GAAACGCGTAAAATCTTCCTGTTCA 49 359 157 Antisense
CTTCCTGTTCACATCACGAATCTTC 105 219 171 Antisense
GAATCTTCATTGAAGCCTTCTCATT 150 329 188 Antisense
GCCTTCTCATTGACATTTGTTGCCG 228 281 202 Antisense
GTTGCCGAATGGGGAGATCGATCAC 574 439 220 Antisense
ATCGATCACAGCTTACCACTATTAT 685 35 236 Antisense
Sequence Source Affymetrix Proprietary Database