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[182535_at]

Description C50F2.3 /REP_DB=WormBase Gene ID /WP=CE08909 /TR=P91175 /GB=AAB37794.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_highest_8_8 > 34      4grp_high_8_8 > 57      6grp_highest_nonorm > 81      6grp_total > 46      4grp_total > 62      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 247
1 2 3 4 range
A 389.2
(3)
P 		284.1
(-2.7)
P 		352.2
(1)
P 		278.2
(-3)
P 		111
B 519.2
(3)
P 		477.4
(1.6)
P 		504.1
(2.5)
P 		335.1
(-3)
P 		184
C 525.5
(3)
P 		428
(-1.1)
P 		451.7
(-0.1)
P 		384.4
(-3)
P 		141
avr 478
(3) 		396.5
(-0.4) 		436
(1.3) 		332.6
(-3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 236
1 2 3 4 5 6 range
A 268.7
(-1.5)
P 		395.3
(3)
P 		266.4
(-1.6)
P 		323.2
(0.4)
P 		227.5
(-3)
P 		321.1
(0.3)
P 		168
B 402.3
(3)
P 		328.3
(1)
P 		288.5
(-0.1)
P 		288.3
(-0.2)
P 		185.2
(-3)
P 		261.6
(-0.9)
P 		217
C 366.5
(1.1)
P 		277.9
(-1.9)
P 		340.4
(0.2)
P 		247.4
(-3)
P 		295
(-1.4)
P 		421.6
(3)
P 		174
avr 345.8
(3) 		333.8
(2.3) 		298.4
(0.4) 		286.3
(-0.2) 		235.9
(-3) 		334.8
(2.4) 		110
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 133
1 2 3 4 range
A 141.7
(3)
P 		61.7
(-1.8)
P 		92.1
(0.1)
P 		40.7
(-3)
P 		101
B 165.6
(3)
P 		117.9
(-0)
P 		116.8
(-0.1)
P 		71.4
(-3)
P 		94
C 173.9
(3)
P 		123
(0.2)
P 		157.4
(2.1)
P 		64.8
(-3)
P 		109
avr 160.4
(3) 		100.9
(-0.5) 		122.1
(0.7) 		59
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 49.5
(-3)
P 		140.6
(3)
P 		58
(-2.4)
P 		82
(-0.9)
P 		68.6
(-1.7)
P 		78.2
(-1.1)
P 		91
B 140
(3)
P 		109.3
(0.4)
P 		70.1
(-3)
P 		76.3
(-2.5)
P 		75.3
(-2.6)
P 		97.5
(-0.6)
P 		70
C 135.9
(2.7)
P 		84.8
(-0.7)
P 		86.6
(-0.6)
P 		49.7
(-3)
P 		95.5
(0)
P 		141.1
(3)
P 		91
avr 108.5
(2.6) 		111.6
(3) 		71.6
(-2.7) 		69.3
(-3) 		79.8
(-1.5) 		105.6
(2.1) 		42
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182535_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.324
Sequence Type Exemplar sequence
Representative Public ID C50F2.3 NCBI
Target Description C50F2.3 /REP_DB=WormBase Gene ID /WP=CE08909 /TR=P91175 /GB=AAB37794.1 /SUBMIT=ST.LOUIS /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_058849(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058849 NCBI Caenorhabditis elegans C50F2.3 (C50F2.3) mRNA, complete cds. 11/11 None
SNAP00000013845 ENSEMBL cdna:SNAP chromosome:CEL140:I:3877068:3880686:1 11/11 None
GENEFINDER00000013860 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3877068:3880686:1 11/11 None
C50F2.3.2 ENSEMBL cdna:known chromosome:CEL140:I:3877065:3880725:1 gene:C50F2.3 11/11 None
C50F2.3.1 ENSEMBL cdna:known chromosome:CEL140:I:3877066:3880749:1 gene:C50F2.3 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
chrI:3877067-3880686(+) 97.62 100.0
Public Domain and Genome References
Gene Title
Ensembl C50F2.3
Entrez Gene 171970 Entrez gene
SwissProt P91175 EMBL-EBI
WormBase CE08909 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:245917_AT transcription-coupled DNA repair protein-related at
CANINE_2:CFAAFFX.28010.1.S1_AT similar to XPA-binding protein 2 (HCNP protein) cfa
DROSOPHILA_2:1629918_AT dm
DROSGENOME1:154470_AT dm
HG-U133A_2:218110_AT XPA binding protein 2 hs
HG-U133A:218110_AT XPA binding protein 2 hs
HG-U133_PLUS_2:218110_AT XPA binding protein 2 hs
HU35KSUBB:RC_F02416_AT XPA binding protein 2 hs
U133_X3P:G9910259_3P_AT XPA binding protein 2 hs
HG-U95B:47620_AT XPA binding protein 2 hs
MG-U74AV2:160174_AT XPA binding protein 2 mm
MOE430A:1437281_X_AT XPA binding protein 2 mm
MOUSE430A_2:1437281_X_AT XPA binding protein 2 mm
MOUSE430_2:1437281_X_AT XPA binding protein 2 mm
MOE430A:1436886_X_AT XPA binding protein 2 mm
MOUSE430A_2:1436886_X_AT XPA binding protein 2 mm
MOUSE430_2:1436886_X_AT XPA binding protein 2 mm
MOE430A:1448278_AT XPA binding protein 2 mm
MOUSE430A_2:1448278_AT XPA binding protein 2 mm
MOUSE430_2:1448278_AT XPA binding protein 2 mm
MU19KSUBA:TC15988_AT XPA binding protein 2, mRNA (cDNA clone MGC:29394 IMAGE:5066146) mm
MU19KSUBC:TC39821_AT XPA binding protein 2, mRNA (cDNA clone MGC:29394 IMAGE:5066146) mm
RG-U34B:RC_AI011321_AT XPA binding protein 2 rn
RG-U34B:RC_AA849613_AT XPA binding protein 2 rn
RAE230A:1370343_AT XPA binding protein 2 rn
RAT230_2:1370343_AT XPA binding protein 2 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6396 RNA processing inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB37794 Hypothetical protein C50F2.3 [Caenorhabditis elegans] ref|NP_491250.1| C50F2.3 [Caenorhabditis elegans] 0.0
blast CAE66642 Hypothetical protein CBG11979 [Caenorhabditis briggsae] 0.0
blast XP_395622 PREDICTED: similar to ENSANGP00000023353 [Apis mellifera] 0.0
Sequence
Target Sequence 
>C. ELEGANS:182535_AT
cggcccatctttgaacgagcgatttccgaattgccagaggataagtctcgagcaatgagc
ttgcggtatgctcagctcgagacgacggtcggagagattgaccgagcccgagcgatctac
gcgcacgccgccgagatttccgatccaaaagttcatgtaaagttctgggatacgtggaaa
aactttgaagttgctcatggaaacgaggcaactgttcgtgacatgcttcgtgttcgtaga
tcagtcgaagcgtcatacaacgtgaatgtcacactgacatctgtacaaatgcgtgtggat
gctgaacgaaaggcacaggagactacgacttcgtcgaatccgatggattcattggatcag
caacagcagcaaccttcggatggagcaggatcaattactcaggtctcaatgaacaaagga
aatatttcatttgtacgtggagccggtaaaacggtacaacagaatactacagagaatcct
gatgaaattgatttggatgaagacgacgatgatgaggaagatgatggtggagatgctgat
atttcagtcaaagttgttccagctcagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGCCCATCTTTGAACGAGCGATTT 661 241 1969 Antisense
CGAGCGATTTCCGAATTGCCAGAGG 23 251 1984 Antisense
CTTGCGGTATGCTCAGCTCGAGACG 362 215 2028 Antisense
GGTCGGAGAGATTGACCGAGCCCGA 695 473 2055 Antisense
GCCGAGATTTCCGATCCAAAAGTTC 436 283 2098 Antisense
GGCAACTGTTCGTGACATGCTTCGT 324 535 2175 Antisense
CATGCTTCGTGTTCGTAGATCAGTC 343 209 2190 Antisense
GGCACAGGAGACTACGACTTCGTCG 659 531 2280 Antisense
GCAACAGCAGCAACCTTCGGATGGA 512 319 2328 Antisense
GCAGGATCAATTACTCAGGTCTCAA 510 311 2353 Antisense
CAGTCAAAGTTGTTCCAGCTCAGAT 500 207 2513 Antisense
Sequence Source Affymetrix Proprietary Database