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[188646_at] degenerin

Description R13A1.3 /REP_DB=WormBase Gene ID /WP=CE04839 /TR=Q21975 /GB=AAA81474.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=degenerin
Cluster 4grp_high_8_8 > 04      6grp_total > 01      4grp_total > 12      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 51
(-1.4)
P 		58.9
(-1)
P 		22.9
(-3)
M 		130.1
(3)
P 		107
B 69.8
(3)
P 		39.3
(-3)
P 		68.9
(2.8)
P 		66.2
(2.3)
P 		31
C 60
(-0.5)
P 		46.5
(-1.5)
P 		25.1
(-3)
P 		108.9
(3)
P 		84
avr 60.3
(-1) 		48.2
(-2.1) 		39
(-3) 		101.7
(3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 23.7
(-2.9)
A 		55.9
(2.4)
P 		41.8
(0.1)
A 		54.2
(2.1)
P 		22.8
(-3)
A 		59.7
(3)
P 		37
B 34.1
(0.5)
A 		42.3
(2.4)
P 		22.6
(-2.1)
A 		18.9
(-3)
A 		44.9
(3)
P 		19.9
(-2.8)
P 		26
C 27.7
(-1.6)
P 		85.3
(3)
P 		28.3
(-1.5)
A 		28.6
(-1.5)
A 		20.1
(-2.2)
A 		9.7
(-3)
A 		76
avr 28.5
(-3) 		61.2
(3) 		30.9
(-2.6) 		33.9
(-2) 		29.3
(-2.9) 		29.8
(-2.8) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 18.6
(2.8)
P 		12.8
(0.1)
P 		6
(-3)
M 		19.1
(3)
P 		13
B 22.3
(3)
P 		9.7
(-3)
P 		16
(0)
P 		14.1
(-0.9)
P 		13
C 19.9
(3)
P 		13.4
(-0.5)
P 		8.8
(-3)
P 		18.4
(2.2)
P 		11
avr 20.3
(3) 		12
(-2) 		10.3
(-3) 		17.2
(1.1) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 4.4
(-3)
A 		19.9
(3)
P 		9.1
(-1.2)
A 		13.8
(0.6)
P 		6.9
(-2)
A 		14.5
(0.9)
P 		16
B 11.8
(0.1)
A 		14.1
(1.1)
P 		5.5
(-2.8)
A 		5
(-3)
A 		18.2
(3)
P 		7.4
(-1.9)
P 		13
C 10.3
(-1.1)
P 		26
(3)
P 		7.2
(-2)
A 		5.8
(-2.3)
A 		6.5
(-2.2)
A 		3.3
(-3)
A 		23
avr 8.8
(-2.3) 		20
(3) 		7.3
(-3) 		8.2
(-2.6) 		10.5
(-1.5) 		8.4
(-2.5) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188646_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9560
Sequence Type Exemplar sequence
Representative Public ID R13A1.3 NCBI
Target Description R13A1.3 /REP_DB=WormBase Gene ID /WP=CE04839 /TR=Q21975 /GB=AAA81474.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=degenerin
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_068738(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068738 NCBI Caenorhabditis elegans R13A1.3 (degenerin) mRNA, complete cds. 9/11 None
R13A1.3 ENSEMBL cdna:known chromosome:CEL140:IV:7204158:7209991:1 gene:R13A1.3 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000003734 1/11 Cross Hyb Matching Probes None
GENEFINDER00000003738 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:7204163-7210188(+) 95.65 100.0
Public Domain and Genome References
Gene Title degenerin
Ensembl R13A1.3
Entrez Gene 187850 Entrez gene
SwissProt Q21975 EMBL-EBI
WormBase CE36605 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_501139 R13A1.3 [Caenorhabditis elegans] gb|AAA81474.2| Hypothetical protein R13A1.3 [Caenorhabditis elegans] 0.0
blast AAK18874 Hypothetical protein B0496.2 [Caenorhabditis elegans] ref|NP_501189.1| B0496.2 [Caenorhabditis elegans] 1.0E-116
blast AAK18873 Hypothetical protein B0496.1 [Caenorhabditis elegans] ref|NP_501188.1| B0496.1 [Caenorhabditis elegans] 1.0E-105
Protein Domains
Database ID Description E-Value
Pfam IPR000210 EMBL-EBI BTB/POZ domain 1.2E-13
Sequence
Target Sequence 
>C. ELEGANS:188646_AT
cgtgcagcaatcattggctcttctcttttattttttcattcatacatagaaaatgcggtt
tcattaggcatattttgtccactctcattttctttctattttttgtcgtatgcctttcta
caaacaagccttattgcttgctccaagtgttctatttttaacttactgtttcaattacta
gttatatgtgtttttcagagtctctctcaaatttgcaagtcttccatgggggacgacagt
tcacaggataaggcttccgcgcctccatctgcagcagcagcaggagcagctccagctgga
aatccacaacaacaaccagccagtgcaatcagaaataaagtggatgttccgcctggaaga
gcttcatcgtggtggcgcaatttagtgatggacgacgacaaaactgcgcctgtgcagtct
gatactgtgatatctcccgaaaatgctggaaatggactcgccgaccatcatcgtaacatt
tc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTGCAGCAATCATTGGCTCTTCTC 556 245 856 Antisense
TGGCTCTTCTCTTTTATTTTTTCAT 165 545 870 Antisense
TTAGGCATATTTTGTCCACTCTCAT 589 681 919 Antisense
TCTATTTTTTGTCGTATGCCTTTCT 352 615 950 Antisense
GCTTGCTCCAAGTGTTCTATTTTTA 692 305 991 Antisense
ATATGTGTTTTTCAGAGTCTCTCTC 640 21 1039 Antisense
GTTCACAGGATAAGGCTTCCGCGCC 350 445 1094 Antisense
TGGAAGAGCTTCATCGTGGTGGCGC 97 547 1209 Antisense
ATGGACGACGACAAAACTGCGCCTG 77 53 1243 Antisense
AATGCTGGAAATGGACTCGCCGACC 273 167 1297 Antisense
TCGCCGACCATCATCGTAACATTTC 561 599 1313 Antisense
Sequence Source Affymetrix Proprietary Database