[Home] | [Total List]

[182428_s_at]

Description Y22F5A.6 /REP_DB=WormBase Gene ID /WP=CE20201 /TR=Q9XXS1 /GB=CAA16319.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 78      6grp_highest_nonorm > 93      6grp_total > 69      4grp_total > 02      6grp_highest_sub > Cu      6grp_cgc > 39      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4088
1 2 3 4 range
A 109
(-2.9)
P 		56
(-3)
A 		46.4
(-3)
A 		4103.2
(3)
P 		4057
B 87.8
(-2.9)
P 		15
(-3)
A 		30.9
(-3)
A 		3627
(3)
P 		3612
C 121.3
(-2.9)
P 		26.8
(-3)
A 		29.9
(-3)
A 		3891
(3)
P 		3864
avr 106
(-2.9) 		32.6
(-3) 		35.7
(-3) 		3873.7
(3) 		3841

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 970
1 2 3 4 5 6 range
A 419.2
(-1)
P 		94.1
(-3)
P 		139
(-2.7)
P 		314.3
(-1.6)
P 		452.8
(-0.8)
P 		1053.4
(3)
P 		959
B 430.3
(-1)
P 		135.6
(-2.8)
P 		106.1
(-3)
P 		265.1
(-2)
P 		621.6
(0.2)
P 		1064.3
(3)
P 		958
C 445.5
(-0.7)
P 		129
(-2.8)
P 		97.6
(-3)
P 		248.2
(-2)
P 		529.6
(-0.2)
P 		1016.5
(3)
P 		919
avr 431.7
(-1) 		119.6
(-3) 		114.2
(-3) 		275.9
(-2) 		534.7
(-0.3) 		1044.7
(3) 		931
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 769
1 2 3 4 range
A 39.7
(-2.7)
P 		12.2
(-3)
A 		12.1
(-3)
A 		600.6
(3)
P 		589
B 28
(-2.8)
P 		3.7
(-3)
A 		7.2
(-3)
A 		772.9
(3)
P 		769
C 40.1
(-2.7)
P 		7.7
(-3)
A 		10.4
(-3)
A 		656.1
(3)
P 		648
avr 35.9
(-2.7) 		7.9
(-3) 		9.9
(-3) 		676.5
(3) 		669

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 372
1 2 3 4 5 6 range
A 77.3
(-1.8)
P 		33.5
(-2.9)
P 		30.3
(-3)
P 		79.7
(-1.7)
P 		136.6
(-0.2)
P 		256.5
(3)
P 		226
B 149.7
(-1)
P 		45.1
(-2.7)
P 		25.8
(-3)
P 		70.2
(-2.3)
P 		252.6
(0.7)
P 		396.9
(3)
P 		371
C 165.1
(-0.3)
P 		39.3
(-2.7)
P 		24.8
(-3)
P 		49.9
(-2.5)
P 		171.4
(-0.2)
P 		340.3
(3)
P 		316
avr 130.7
(-1) 		39.3
(-2.8) 		27
(-3) 		66.6
(-2.2) 		186.9
(0.2) 		331.2
(3) 		304
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 182428_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11851
Sequence Type Exemplar sequence
Representative Public ID Y22F5A.6 NCBI
Target Description Y22F5A.6 /REP_DB=WormBase Gene ID /WP=CE20201 /TR=Q9XXS1 /GB=CAA16319.1 /SUBMIT=HINXTON /CHR=5 /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_073243(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073243 NCBI Caenorhabditis elegans LYSozyme family member (lys-3) (lys-3) mRNA, complete cds. 11/11 None
SNAP00000026006 ENSEMBL cdna:SNAP chromosome:CEL140:V:10284796:10286025:-1 11/11 None
GENEFINDER00000026007 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10282949:10286003:-1 11/11 None
Y22F5A.6 ENSEMBL cdna:known chromosome:CEL140:V:10284785:10286025:-1 gene:Y22F5A.6 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:10284795-10286025(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol lys-3
Ensembl Y22F5A.6
Entrez Gene 179430 Entrez gene
SwissProt Q9XXS1 EMBL-EBI
WormBase CE20201 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9253 peptidoglycan catabolism inferred from electronic annotation QuickGO AmiGO
16998 cell wall catabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3796 lysozyme activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA16319 Hypothetical protein Y22F5A.6 [Caenorhabditis elegans] ref|NP_505644.1| LYSozyme family member (lys-3) [Caenorhabditis elegans] 1.0E-176
blast CAA16319 Hypothetical protein Y22F5A.6 [Caenorhabditis elegans] ref|NP_505644.1| LYSozyme family member (lys-3) [Caenorhabditis elegans] 1.0E-168
blast CAA16324 Hypothetical protein Y22F5A.5 [Caenorhabditis elegans] ref|NP_505643.1| LYSozyme family member (lys-2) [Caenorhabditis elegans] 1.0E-145
blast CAE64781 Hypothetical protein CBG09574 [Caenorhabditis briggsae] 1.0E-124
blast CAE64781 Hypothetical protein CBG09574 [Caenorhabditis briggsae] 1.0E-120
blast CAA16323 Hypothetical protein Y22F5A.4 [Caenorhabditis elegans] ref|NP_505642.1| LYSozyme family member (lys-1) [Caenorhabditis elegans] 6.0E-63
Sequence
Target Sequence 
>C. ELEGANS:182428_S_AT
tacatcactccaaacatcaactcaacaaggtctggagcagaccaaattagtctggtctac
cagaatttgcttgctaatggaattaatgttagatctatctggattcaagtaacttctcca
acaaattgggttgcaccaatggctgtgagaattgagtttatccaagatatgattagaagt
gcgaagaatctgggcttgtcagttggaatctacacttcattttatgattggttggaaatc
acaggaggctggaacacgtttagttctgatgttttcttgtggtactggcatgttctgagt
atgggtactgatggtgaaactactccaactcttgaagatttccgtccatttggaccatgg
agacaggccactgtgaaacaatttggacaagttgaaaaactttgtggaatgattgtaaac
cgaaatgtgtattccaccggaaaccaacacttgtctcaaattgtacacttctcaactcat
caa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACATCACTCCAAACATCAACTCAA 306 645 382 Antisense
TGGTCTACCAGAATTTGCTTGCTAA 113 553 434 Antisense
GAAGTGCGAAGAATCTGGGCTTGTC 227 333 557 Antisense
GGGCTTGTCAGTTGGAATCTACACT 257 493 573 Antisense
CACAGGAGGCTGGAACACGTTTAGT 553 195 621 Antisense
GTTTTCTTGTGGTACTGGCATGTTC 333 449 652 Antisense
GGTGAAACTACTCCAACTCTTGAAG 38 499 694 Antisense
GAAGATTTCCGTCCATTTGGACCAT 601 335 715 Antisense
TGGACCATGGAGACAGGCCACTGTG 675 547 732 Antisense
CACCGGAAACCAACACTTGTCTCAA 261 201 816 Antisense
AATTGTACACTTCTCAACTCATCAA 499 177 840 Antisense
Sequence Source Affymetrix Proprietary Database