[Home] | [Total List]

[185313_at]

Description Y52B11A.8 /REP_DB=WormBase Gene ID /WP=CE20296 /TR=Q9U256 /GB=CAB63390.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 88      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 93      6grp_total > 89      4grp_total > 42      6grp_highest_sub > In      6grp_high1_sub > Da      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 248
1 2 3 4 range
A 248.6
(-3)
P 		496.5
(3)
P 		346.4
(-0.6)
P 		325.2
(-1.1)
P 		248
B 273.5
(-3)
P 		443.6
(1.7)
P 		491.6
(3)
P 		330.5
(-1.4)
P 		218
C 303.8
(-3)
P 		438
(3)
P 		373.8
(0.1)
P 		351.3
(-0.9)
P 		134
avr 275.3
(-3) 		459.4
(3) 		403.9
(1.2) 		335.7
(-1) 		184

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 569
1 2 3 4 5 6 range
A 242.8
(-2.9)
P 		421.6
(-0.6)
P 		400.1
(-0.9)
P 		231.7
(-3)
P 		529.6
(0.7)
P 		709.2
(3)
P 		478
B 256.9
(-3)
P 		433.6
(-0.6)
P 		410.7
(-0.9)
P 		279.5
(-2.7)
P 		500.6
(0.3)
P 		705.2
(3)
P 		448
C 190.1
(-3)
P 		386.5
(-0.9)
P 		272.3
(-2.1)
P 		290.5
(-1.9)
P 		578.4
(1.1)
P 		759.4
(3)
P 		569
avr 229.9
(-3) 		413.9
(-0.8) 		361
(-1.4) 		267.2
(-2.5) 		536.2
(0.7) 		724.6
(3) 		495
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 83
1 2 3 4 range
A 90.5
(1.3)
P 		107.8
(3)
P 		90.6
(1.3)
P 		47.6
(-3)
P 		60
B 87.2
(-0.7)
P 		109.6
(2.4)
P 		113.9
(3)
P 		70.4
(-3)
P 		44
C 100.6
(0.5)
P 		125.9
(2.6)
P 		130.3
(3)
P 		59.2
(-3)
P 		71
avr 92.8
(0.7) 		114.4
(3) 		111.6
(2.7) 		59.1
(-3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 218
1 2 3 4 5 6 range
A 44.7
(-3)
P 		149.9
(1.9)
P 		87.1
(-1)
P 		58.8
(-2.3)
P 		159.8
(2.4)
P 		172.7
(3)
P 		128
B 89.4
(-2.5)
P 		144.3
(-0.8)
P 		99.7
(-2.2)
P 		74
(-3)
P 		203.4
(1.1)
P 		263
(3)
P 		189
C 70.4
(-2.6)
P 		117.9
(-1.2)
P 		69.3
(-2.7)
P 		58.4
(-3)
P 		187.1
(0.9)
P 		254.2
(3)
P 		196
avr 68.2
(-2.8) 		137.4
(-0.3) 		85.4
(-2.2) 		63.7
(-3) 		183.4
(1.3) 		230
(3) 		166
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185313_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1694
Sequence Type Exemplar sequence
Representative Public ID Y52B11A.8 NCBI
Target Description Y52B11A.8 /REP_DB=WormBase Gene ID /WP=CE20296 /TR=Q9U256 /GB=CAB63390.1 /SUBMIT=HINXTON /CHR=1 /FEA=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_060458(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060458 NCBI Caenorhabditis elegans Y52B11A.8 (Y52B11A.8) mRNA, complete cds. 11/11 A 
SNAP00000015594 ENSEMBL cdna:SNAP chromosome:CEL140:I:11038766:11060523:1 9/11 None
GENEFINDER00000015606 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11040467:11041294:1 9/11 None
Y52B11A.8 ENSEMBL cdna:known chromosome:CEL140:I:11040466:11042178:1 gene:Y52B11A.8 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
chrI:11040397-11042010(+) 99.62 100.0
Public Domain and Genome References
Gene Title
Ensembl Y52B11A.8
Entrez Gene 173004 Entrez gene
SwissProt Q9U256 EMBL-EBI
WormBase CE20296 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
16042 lipid catabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4623 phospholipase A2 activity inferred from electronic annotation QuickGO AmiGO
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB63391 Hypothetical protein Y52B11A.10 [Caenorhabditis elegans] ref|NP_492861.1| Y52B11A.10 [Caenorhabditis elegans] 0.0
blast CAE71829 Hypothetical protein CBG18870 [Caenorhabditis briggsae] 0.0
blast CAB63390 Hypothetical protein Y52B11A.8 [Caenorhabditis elegans] ref|NP_492859.1| Y52B11A.8 [Caenorhabditis elegans] 1.0E-85
blast CAB63390 Hypothetical protein Y52B11A.8 [Caenorhabditis elegans] ref|NP_492859.1| Y52B11A.8 [Caenorhabditis elegans] 2.0E-69
blast CAE56164 Hypothetical protein CBG23784 [Caenorhabditis briggsae] 1.0E-61
blast CAB63390 Hypothetical protein Y52B11A.8 [Caenorhabditis elegans] ref|NP_492859.1| Y52B11A.8 [Caenorhabditis elegans] 4.0E-39
blast CAE56164 Hypothetical protein CBG23784 [Caenorhabditis briggsae] 3.0E-32
blast AAA98725 Hypothetical protein B0478.3 [Caenorhabditis elegans] ref|NP_501074.1| B0478.3 [Caenorhabditis elegans] 5.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 1.6E-27
Pfam IPR003891 EMBL-EBI Initiation factor eIF-4 gamma, MA3 8.3E-35
Sequence
Target Sequence 
>C. ELEGANS:185313_AT
cgtctcggtggcagcttcagccaccccaaccaccaccacaaaatccccgccaccaacgac
aacgacactgtctccgcaaattctcaaagccaagcttccaccagtcgtcaaaaatgccac
gtgggagtgcggaaccgacgagttcaccaagtcgatcagcgaaggcgagattcaggcgaa
atgcccaaagctcagagatcacatcaacagttgctgccttcaacacgacggctgctacga
agcacagtcgggacaaaagttctgcgatgacacgttttgctcgtgtcttgagcgccgttc
tcgaagctccaaatcatgccacgacgagtcggctccactattctgcgatctcgtccgaac
ctttggtgacggtgcctacgaagcttctggtccaaacgcctcgactaccgaagagagtcc
tgccgagaaggacgactacgactacgaatcccacgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTCTCGGTGGCAGCTTCAGCCACC 39 247 45 Antisense
CAACGACACTGTCTCCGCAAATTCT 667 187 104 Antisense
AATTCTCAAAGCCAAGCTTCCACCA 160 177 123 Antisense
ATGCCACGTGGGAGTGCGGAACCGA 389 39 158 Antisense
GAGTGCGGAACCGACGAGTTCACCA 409 401 169 Antisense
CGAGTTCACCAAGTCGATCAGCGAA 255 249 183 Antisense
GATCAGCGAAGGCGAGATTCAGGCG 481 419 198 Antisense
GAAATGCCCAAAGCTCAGAGATCAC 70 363 222 Antisense
TCAACAGTTGCTGCCTTCAACACGA 123 631 248 Antisense
CTGCCGAGAAGGACGACTACGACTA 161 211 464 Antisense
CGACTACGACTACGAATCCCACGTG 158 251 477 Antisense
Sequence Source Affymetrix Proprietary Database