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[179791_s_at]

Description K04C2.4 /REP_DB=WormBase Gene ID /WP=CE00798 /TR=Q21209 /GB=AAA50679.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 87      4grp_high_8_8 > 53      6grp_total > 88      4grp_total > 58      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 180
1 2 3 4 range
A 135.7
(-1.3)
P 		243.3
(3)
P 		224.8
(2.3)
P 		91.9
(-3)
A 		151
B 193.9
(0.3)
P 		249
(2.5)
P 		260.1
(3)
P 		113.4
(-3)
P 		147
C 170.5
(-2.4)
P 		271.6
(3)
P 		242
(1.4)
P 		158.4
(-3)
A 		113
avr 166.7
(-1) 		254.6
(3) 		242.3
(2.4) 		121.2
(-3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 487
1 2 3 4 5 6 range
A 187.2
(-2.7)
P 		233.2
(-1.6)
P 		172
(-3)
P 		252.3
(-1.2)
P 		352.7
(1)
P 		443.3
(3)
P 		271
B 216.9
(-1.9)
P 		187.8
(-2.3)
P 		141
(-3)
A 		251.9
(-1.4)
P 		381.4
(0.5)
P 		552.2
(3)
P 		411
C 129.2
(-3)
P 		236
(-1.7)
P 		148.7
(-2.8)
P 		199.1
(-2.1)
P 		258.7
(-1.4)
P 		616.5
(3)
P 		487
avr 177.8
(-2.6) 		219
(-2) 		153.9
(-3) 		234.4
(-1.7) 		330.9
(-0.2) 		537.3
(3) 		383
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 49.4
(1.8)
P 		52.8
(2.2)
P 		58.8
(3)
P 		13.4
(-3)
A 		45
B 61.8
(3)
P 		61.5
(3)
P 		60.3
(2.8)
P 		24.2
(-3)
P 		38
C 56.4
(0.1)
P 		78.1
(2.3)
P 		84.4
(3)
P 		26.7
(-3)
A 		58
avr 55.9
(1.5) 		64.1
(2.5) 		67.8
(3) 		21.4
(-3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 172
1 2 3 4 5 6 range
A 34.5
(-3)
P 		82.9
(1)
P 		37.5
(-2.8)
P 		64
(-0.6)
P 		106.4
(2.9)
P 		107.9
(3)
P 		73
B 75.5
(-1.6)
P 		62.5
(-2)
P 		34.2
(-3)
A 		66.7
(-1.9)
P 		155
(1.2)
P 		205.9
(3)
P 		172
C 47.9
(-2.6)
P 		72
(-1.8)
P 		37.9
(-3)
P 		40
(-2.9)
P 		83.7
(-1.4)
P 		206.4
(3)
P 		169
avr 52.6
(-2.3) 		72.5
(-1.4) 		36.5
(-3) 		56.9
(-2.1) 		115
(0.4) 		173.4
(3) 		137
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 179791_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7977
Sequence Type Exemplar sequence
Representative Public ID K04C2.4 NCBI
Target Description K04C2.4 /REP_DB=WormBase Gene ID /WP=CE00798 /TR=Q21209 /GB=AAA50679.1 /SUBMIT=ST.LOUIS /CHR=3 /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_066097(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066097 NCBI Caenorhabditis elegans BaRD homolog (tumor suppressor gene Bard1) family member (brd-1) (brd-1) mRNA, complete cds. 11/11 None
SNAP00000012108 ENSEMBL cdna:SNAP chromosome:CEL140:III:6885208:6888618:-1 11/11 None
GENEFINDER00000012120 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6885208:6889427:-1 11/11 None
K04C2.4 ENSEMBL cdna:known chromosome:CEL140:III:6885135:6889436:-1 gene:K04C2.4 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
chrIII:6885206-6889426(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol brd-1
Ensembl K04C2.4
Entrez Gene 175959 Entrez gene
SwissProt Q21209 EMBL-EBI
WormBase CE32690 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA50679 Bard homolog (tumor suppressor gene bard1) protein 1 [Caenorhabditis elegans] ref|NP_498498.2| BaRD homolog (tumor suppressor gene Bard1) family member (brd-1) [Caenorhabditis elegans] 0.0
blast CAE71320 Hypothetical protein CBG18216 [Caenorhabditis briggsae] 0.0
blast XP_793413 PREDICTED: similar to BRCA1-associated RING domain protein 1 (BARD-1), partial [Strongylocentrotus purpuratus] 3.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR001357 EMBL-EBI BRCT 0.13
Pfam IPR001357 EMBL-EBI BRCT 2.8E-4
Pfam IPR002110 EMBL-EBI Ankyrin 8.9E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.2E-6
Pfam IPR001357 EMBL-EBI BRCT 0.13
Pfam IPR001357 EMBL-EBI BRCT 2.8E-4
Pfam IPR002110 EMBL-EBI Ankyrin 1.6E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.2E-6
Pfam IPR001357 EMBL-EBI BRCT 0.35
Pfam IPR001357 EMBL-EBI BRCT 2.8E-4
Pfam IPR002110 EMBL-EBI Ankyrin 8.9E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.2E-6
Sequence
Target Sequence 
>C. ELEGANS:179791_S_AT
agttcctgctgatatggattctccgacgcatgtggtagtcaccgttgatttgaaaactcg
tgtgctcaatattaacaaggagcatattggagaaattttaaaagctatcataaaatcggg
aatgatagttagtcgagattggctgagagcgtgcattattgatccatcgaaagtcgatga
tgatcgttcttatatggttcagaaagttagatggatggaaggtgaagtatttgaaaatac
tattgaacaatggaagaagacaatcactaaaatgcaaccaaaattgttcgccggttgcaa
atttttcattccaaagccaaagtataacttcctcgatcgcccagctctttttgaaattat
tcgatctgccggtggtcaagctgcagcgagggagcccattattgacgaaaaagatccacc
gccgtaccataatgccaacttgaaaccaaactttgtgctctacagcttgacacatgatat
aggagacaaattccgcgactgcacaaagtacaatcttgtcagcgagcagtgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTTCCTGCTGATATGGATTCTCCG 281 65 1395 Antisense
GGATTCTCCGACGCATGTGGTAGTC 327 509 1410 Antisense
GAGAGCGTGCATTATTGATCCATCG 120 395 1539 Antisense
GTTCGCCGGTTGCAAATTTTTCATT 542 439 1680 Antisense
GCCAAAGTATAACTTCCTCGATCGC 406 277 1710 Antisense
TATTCGATCTGCCGGTGGTCAAGCT 360 665 1752 Antisense
TGGTCAAGCTGCAGCGAGGGAGCCC 566 551 1767 Antisense
CGCCGTACCATAATGCCAACTTGAA 163 257 1814 Antisense
AACTTTGTGCTCTACAGCTTGACAC 365 139 1843 Antisense
GACAAATTCCGCGACTGCACAAAGT 325 365 1879 Antisense
GTACAATCTTGTCAGCGAGCAGTGG 448 461 1902 Antisense
Sequence Source Affymetrix Proprietary Database