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[179963_at]

Description C50D2.5 /REP_DB=WormBase Gene ID /WP=CE27875 /TR=O44795 /GB=AAB94953.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 90      4grp_total > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 181
1 2 3 4 range
A 126.8
(-3)
A 		226.4
(0.9)
A 		177.7
(-1)
A 		280.6
(3)
A 		154
B 191.5
(3)
A 		99.6
(-3)
A 		165.2
(1.3)
A 		180.3
(2.3)
A 		92
C 192.2
(0.7)
A 		151.1
(-1.5)
A 		123.2
(-3)
A 		236.5
(3)
A 		113
avr 170.2
(-1.8) 		159
(-2.7) 		155.4
(-3) 		232.5
(3) 		77

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 204.2
(3)
A 		165.6
(-1.2)
A 		149.3
(-3)
A 		175.7
(-0.1)
A 		177.2
(0)
A 		166.7
(-1.1)
A 		55
B 122.2
(-2.2)
A 		175.2
(2.4)
A 		138.6
(-0.8)
A 		182.6
(3)
A 		132.9
(-1.3)
A 		112.6
(-3)
A 		70
C 173
(-0.7)
A 		154.2
(-3)
A 		169
(-1.2)
A 		204
(3)
A 		169.4
(-1.2)
A 		163.1
(-1.9)
A 		50
avr 166.5
(-0.1) 		165
(-0.4) 		152.3
(-2.3) 		187.4
(3) 		159.8
(-1.2) 		147.5
(-3) 		40
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 46.2
(0.8)
A 		49.2
(3)
A 		46.5
(1)
A 		41.1
(-3)
A 		8
B 61.1
(3)
A 		24.6
(-3)
A 		38.3
(-0.7)
A 		38.4
(-0.7)
A 		37
C 63.6
(3)
A 		43.5
(-2.1)
A 		42.9
(-2.2)
A 		39.9
(-3)
A 		24
avr 57
(3) 		39.1
(-3) 		42.6
(-1.8) 		39.8
(-2.8) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 37.6
(-1.8)
A 		58.9
(3)
A 		32.5
(-3)
A 		44.6
(-0.3)
A 		53.5
(1.8)
A 		40.6
(-1.2)
A 		26
B 42.5
(-0.9)
A 		58.3
(3)
A 		33.7
(-3)
A 		48.4
(0.6)
A 		54
(2)
A 		42
(-1)
A 		25
C 64.1
(3)
A 		47.1
(-1.4)
A 		43
(-2.5)
A 		41
(-3)
A 		54.8
(0.6)
A 		54.6
(0.5)
A 		23
avr 48.1
(0.8) 		54.8
(3) 		36.4
(-3) 		44.7
(-0.3) 		54.1
(2.8) 		45.7
(0) 		18
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179963_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4646
Sequence Type Exemplar sequence
Representative Public ID C50D2.5 NCBI
Target Description C50D2.5 /REP_DB=WormBase Gene ID /WP=CE27875 /TR=O44795 /GB=AAB94953.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001026866, NM_061258
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000026471 ENSEMBL cdna:SNAP chromosome:CEL140:II:98411:98893:1 None
NM_061258 NCBI Caenorhabditis elegans C50D2.5 (C50D2.5) mRNA, complete cds. A 
SNAP00000026472 ENSEMBL cdna:SNAP chromosome:CEL140:II:99863:100096:1 None
NM_001026866 NCBI Caenorhabditis elegans C50D2.10 (C50D2.10) mRNA, complete cds. None
C50D2.5 ENSEMBL cdna:known chromosome:CEL140:II:98261:98940:1 gene:C50D2.5 A 
GENEFINDER00000026479 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:99863:100569:1 None
GENEFINDER00000026483 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:98411:98893:1 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
chrII:98410-100096(+) 95.85 100.0
Public Domain and Genome References
Gene Title

Ensembl C50D2.5
Entrez Gene 173394 Entrez gene
3565214 Entrez gene
SwissProt Q8ITY4 EMBL-EBI
WormBase CE38696 Wormbase
CE38492 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250314_AT RNA recognition motif (RRM)-containing protein at
CANINE:1583477_S_AT similar to splicing factor 3B, 14 kDa subunit cfa
CANINE_2:CFA.5126.1.A1_S_AT similar to splicing factor 3B, 14 kDa subunit cfa
CANINE_2:CFAAFFX.6865.1.S1_AT similar to splicing factor 3B, 14 kDa subunit cfa
DROSOPHILA_2:1630953_AT dm
DROSGENOME1:148273_AT dm
CHICKEN:GGA.2001.1.S1_AT pre-mRNA branch site protein p14 gga
HG-U133_PLUS_2:223416_AT splicing factor 3B, 14 kDa subunit hs
HG-U133B:223416_AT splicing factor 3B, 14 kDa subunit hs
HU35KSUBC:RC_W38203_AT splicing factor 3B, 14 kDa subunit hs
HU35KSUBC:RC_AA365527_AT splicing factor 3B, 14 kDa subunit hs
U133_X3P:G9963796_3P_AT splicing factor 3B, 14 kDa subunit hs
HG-U95C:60461_AT splicing factor 3B, 14 kDa subunit hs
HU35KSUBB:RC_H47358_AT Splicing factor 3B, 14 kDa subunit hs
U133_X3P:HS2.321360.1.S1_3P_S_AT Splicing factor 3B, 14 kDa subunit hs
HG-U133_PLUS_2:1561923_A_AT Splicing factor 3B, 14 kDa subunit hs
HG-U95B:42821_AT Splicing factor 3B, 14 kDa subunit hs
MOUSE430_2:1436681_X_AT RIKEN cDNA 0610009D07 gene mm
MOE430A:1436681_X_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430A_2:1436681_X_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430_2:1435508_X_AT RIKEN cDNA 0610009D07 gene mm
MOE430A:1435508_X_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430A_2:1435508_X_AT RIKEN cDNA 0610009D07 gene mm
MG-U74AV2:95714_AT RIKEN cDNA 0610009D07 gene mm
MOE430A:1417054_A_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430A_2:1417054_A_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430_2:1417054_A_AT RIKEN cDNA 0610009D07 gene mm
MOE430A:1417055_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430A_2:1417055_AT RIKEN cDNA 0610009D07 gene mm
MOUSE430_2:1417055_AT RIKEN cDNA 0610009D07 gene mm
MU19KSUBA:TC22564_AT RIKEN cDNA 0610009D07 gene, mRNA (cDNA clone MGC:28726 IMAGE:4458983) mm
Protein Similarities
Method ID Description E-Value
blast Q8ITY4 Pre-mRNA branch site p14-like protein 1.0E-105
blast NP_493659 C50D2.5 [Caenorhabditis elegans] gb|AAN73870.2| Hypothetical protein C50D2.5 [Caenorhabditis elegans] 5.0E-75
blast Q8ITY4 Pre-mRNA branch site p14-like protein 5.0E-75
blast NP_493659 C50D2.5 [Caenorhabditis elegans] gb|AAN73870.2| Hypothetical protein C50D2.5 [Caenorhabditis elegans] 1.0E-74
blast CAE62811 Hypothetical protein CBG06987 [Caenorhabditis briggsae] 3.0E-73
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-15
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-15
Trans Membrane
ID Number Of Domains Domain Boundaries
C50D2.5 1 28-47
Sequence
Target Sequence 
>C. ELEGANS:179963_AT
ggcaaatcgtcaaaaccgtggcgcaaagctgccgccagaggtcaatcgtattctttatat
taaaaatttgccgtataaaatcacgacggaagagatcggaaacactgcagaaactcgcgg
aactgcattcgtcgtctacgaggacatattcgatgcgaaaaccgcctgcgaacatctgtc
tggctataacgtttcgaatcggtatcttgtggtgctctattatcaagcgacaaaagcgtg
gaagagaatggacacggaaaaggctcgtaccaagcttgaagatatcaaagaaagatatgg
aattggtggagacatcgacaaggaaaaggagaagttgggattaagcctttcccatgtagt
tttcactgcaacttttttcgaacgagggttaaggttattttttcgaatgccagttccaac
tccactctcggaattcgtttcttccaaagttgccacgtttagcaacattcaaagattctt
gaatctcgacggaaatgagcatcttgccgtcgccgctcttcaagacagtcgggtaatggg
aattccagaagcgaccggccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCAAATCGTCAAAACCGTGGCGCA 127 533 21 Antisense
AAAACCGTGGCGCAAAGCTGCCGCC 283 129 32 Antisense
CTGCCGCCAGAGGTCAATCGTATTC 343 235 49 Antisense
GACGGAAGAGATCGGAAACACTGCA 691 375 105 Antisense
TAAGCCTTTCCCATGTAGTTTTCAC 693 637 362 Antisense
TAAGGTTATTTTTTCGAATGCCAGT 573 611 410 Antisense
AACTCCACTCTCGGAATTCGTTTCT 665 141 438 Antisense
CTTCCAAAGTTGCCACGTTTAGCAA 240 213 461 Antisense
CGGAAATGAGCATCTTGCCGTCGCC 14 243 510 Antisense
GCCGCTCTTCAAGACAGTCGGGTAA 90 265 532 Antisense
TGGGAATTCCAGAAGCGACCGGCCC 609 553 557 Antisense
Sequence Source Affymetrix Proprietary Database