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[179964_s_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_highest_10_10 > 67      6grp_high1_10_10 > 75      4grp_highest_8_8 > 21      4grp_high_8_8 > 15      6grp_highest_nonorm > 57      6grp_total > 66      4grp_total > 08      6grp_highest_sub > In      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1155
1 2 3 4 range
A 1776.8
(-3)
P 		1930.1
(0.1)
P 		2044.3
(2.4)
P 		2074.6
(3)
P 		298
B 1932.8
(-1.9)
P 		1727.7
(-3)
P 		1970.6
(-1.7)
P 		2836.3
(3)
P 		1109
C 1681.8
(-3)
P 		1797.7
(-2)
P 		2124.7
(0.7)
P 		2402.5
(3)
P 		721
avr 1797.1
(-3) 		1818.5
(-2.8) 		2046.5
(-0.7) 		2437.8
(3) 		641

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1289
1 2 3 4 5 6 range
A 2022.1
(-1.4)
P 		1862.6
(-3)
P 		2463.6
(3)
P 		2063.2
(-1)
P 		2175.2
(0.1)
P 		2210.2
(0.5)
P 		601
B 2207.6
(-3)
P 		2322.9
(-1.9)
P 		2594.8
(0.6)
P 		2234.9
(-2.7)
P 		2284
(-2.3)
P 		2849.5
(3)
P 		642
C 1934.2
(-3)
P 		2181.3
(-1.8)
P 		2021.3
(-2.6)
P 		2506.8
(-0.2)
P 		1951.3
(-2.9)
P 		3152
(3)
P 		1218
avr 2054.6
(-3) 		2122.3
(-2.4) 		2359.9
(-0.3) 		2268.3
(-1.1) 		2136.8
(-2.3) 		2737.2
(3) 		683
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 437
1 2 3 4 range
A 646.9
(3)
P 		419
(-1)
P 		534.4
(1)
P 		303.7
(-3)
P 		343
B 616.3
(3)
P 		426.7
(-3)
P 		456.6
(-2.1)
P 		604.4
(2.6)
P 		190
C 556.7
(-0.3)
P 		516.8
(-1)
P 		740.5
(3)
P 		405.1
(-3)
P 		335
avr 606.6
(3) 		454.2
(-2.4) 		577.2
(2) 		437.7
(-3) 		169

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 690
1 2 3 4 5 6 range
A 372.8
(-3)
P 		662.4
(3)
P 		536.5
(0.4)
P 		523.3
(0.1)
P 		656.4
(2.9)
P 		538.1
(0.4)
P 		290
B 768.1
(-0.8)
P 		773.2
(-0.7)
P 		630.1
(-2.5)
P 		591.9
(-3)
P 		928
(1.3)
P 		1062.6
(3)
P 		471
C 716.9
(-0.7)
P 		665.6
(-1.2)
P 		514.5
(-2.9)
P 		504.1
(-3)
P 		631.4
(-1.6)
P 		1055.2
(3)
P 		551
avr 619.3
(-1.6) 		700.4
(-0.2) 		560.4
(-2.6) 		539.8
(-3) 		738.6
(0.5) 		885.3
(3) 		346
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 179964_s_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 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_061258(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061258 NCBI Caenorhabditis elegans C50D2.5 (C50D2.5) mRNA, complete cds. 11/11 None
SNAP00000026471 ENSEMBL cdna:SNAP chromosome:CEL140:II:98411:98893:1 11/11 None
GENEFINDER00000026483 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:98411:98893:1 11/11 None
C50D2.5 ENSEMBL cdna:known chromosome:CEL140:II:98261:98940:1 gene:C50D2.5 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
chrII:98410-100096(+) 95.85 100.0
Public Domain and Genome References
Gene Title
Ensembl C50D2.5
Entrez Gene 173394 Entrez gene
SwissProt Q8ITY4 EMBL-EBI
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:179964_S_AT
gaaacactgcagaaactcgcggaactgcattcgtcgtctacgaggacatattcgatgcga
aaaccgcctgcgaacatctgtctggctataacgtttcgaatcggtatcttgtggtgctct
attatcaagcgacaaaagcgtggaagagaatggacacggaaaaggctcgtaccaagcttg
aagatatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACACTGCAGAAACTCGCGGAAC 152 357 119 Antisense
AGAAACTCGCGGAACTGCATTCGTC 271 73 129 Antisense
ACTGCATTCGTCGTCTACGAGGACA 314 97 142 Antisense
TATTCGATGCGAAAACCGCCTGCGA 665 663 167 Antisense
GAAAACCGCCTGCGAACATCTGTCT 330 355 177 Antisense
GCGAACATCTGTCTGGCTATAACGT 70 287 188 Antisense
GGCTATAACGTTTCGAATCGGTATC 543 537 202 Antisense
AATCGGTATCTTGTGGTGCTCTATT 491 169 217 Antisense
GTGGTGCTCTATTATCAAGCGACAA 596 489 229 Antisense
GACACGGAAAAGGCTCGTACCAAGC 561 345 271 Antisense
GGCTCGTACCAAGCTTGAAGATATC 331 539 282 Antisense
Sequence Source Affymetrix Proprietary Database