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[185482_at]

Description F49D11.1 /REP_DB=WormBase Gene ID /WP=CE28405 /TR=O44729 /GB=AAB96707.2 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 56      4grp_highest_8_8 > 35      4grp_high_8_8 > 56      6grp_highest_nonorm > 82      6grp_total > 56      4grp_total > 63      6grp_cgc > 36      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 201
1 2 3 4 range
A 412.4
(3)
P 		211.5
(-3)
P 		276.5
(-1.1)
P 		233.1
(-2.4)
P 		201
B 343.6
(3)
P 		249.8
(-3)
P 		319.6
(1.5)
P 		250.3
(-3)
P 		94
C 397.5
(2.8)
P 		283.1
(-1.5)
P 		403.1
(3)
P 		242.7
(-3)
P 		160
avr 384.5
(3) 		248.1
(-2.7) 		333.1
(0.8) 		242
(-3) 		143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 418
1 2 3 4 5 6 range
A 221.9
(-3)
P 		391.9
(-0.1)
P 		273.3
(-2.1)
P 		573.5
(3)
P 		220.4
(-3)
P 		556.4
(2.7)
P 		353
B 285.6
(-2.7)
P 		309.6
(-1.6)
P 		324.6
(-0.9)
P 		278.9
(-3)
P 		289.9
(-2.5)
P 		408
(3)
P 		129
C 638.8
(3)
P 		397.1
(-1.7)
P 		535.8
(1)
P 		330.7
(-3)
P 		397.3
(-1.7)
P 		436.3
(-0.9)
P 		308
avr 382.1
(-0.1) 		366.2
(-0.7) 		377.9
(-0.2) 		394.4
(0.4) 		302.5
(-3) 		466.9
(3) 		164
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 150.2
(3)
P 		45.9
(-2.4)
P 		72.3
(-1)
P 		34.1
(-3)
P 		116
B 109.6
(3)
P 		61.7
(-2.1)
P 		74.1
(-0.8)
P 		53.3
(-3)
P 		56
C 131.6
(2.5)
P 		81.4
(-0.6)
P 		140.5
(3)
P 		40.9
(-3)
P 		100
avr 130.5
(3) 		63
(-1.6) 		95.6
(0.6) 		42.8
(-3) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 196
1 2 3 4 5 6 range
A 40.9
(-3)
P 		139.4
(2.7)
P 		59.5
(-1.9)
P 		145.4
(3)
P 		66.5
(-1.5)
P 		135.5
(2.4)
P 		105
B 99.4
(-1)
P 		103
(-0.8)
P 		78.8
(-2.6)
P 		73.9
(-3)
P 		117.8
(0.4)
P 		152.1
(3)
P 		78
C 236.8
(3)
P 		121.2
(-1.1)
P 		136.4
(-0.5)
P 		66.5
(-3)
P 		128.6
(-0.8)
P 		146
(-0.2)
P 		170
avr 125.7
(0.9) 		121.2
(0.4) 		91.6
(-3) 		95.3
(-2.6) 		104.3
(-1.6) 		144.5
(3) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185482_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.628
Sequence Type Exemplar sequence
Representative Public ID F49D11.1 NCBI
Target Description F49D11.1 /REP_DB=WormBase Gene ID /WP=CE28405 /TR=O44729 /GB=AAB96707.2 /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_060450(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060450 NCBI Caenorhabditis elegans yeast PRP (splicing factor) related family member (prp-17) (prp-17) mRNA, complete cds. 11/11 None
SNAP00000015046 ENSEMBL cdna:SNAP chromosome:CEL140:I:10944965:10948382:1 11/11 None
GENEFINDER00000015062 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10944965:10948382:1 11/11 None
F49D11.1 ENSEMBL cdna:known chromosome:CEL140:I:10944946:10948671:1 gene:F49D11.1 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:10946399-10948313(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol prp-17
Ensembl F49D11.1
Entrez Gene 172999 Entrez gene
SwissProt O44729 EMBL-EBI
WormBase CE28405 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:263261_AT transducin family protein / WD-40 repeat family protein at
CANINE:1602609_AT similar to Pre-mRNA splicing factor PRP17 (hPRP17) (Cell division cycle 40 homolog) (EH-binding protein 3) (Ehb3) cfa
CANINE_2:CFAAFFX.6750.1.S1_AT similar to Pre-mRNA splicing factor PRP17 (hPRP17) (Cell division cycle 40 homolog) (EH-binding protein 3) (Ehb3) cfa
DROSOPHILA_2:1634334_AT dm
DROSGENOME1:142667_AT dm
CHICKEN:GGAAFFX.9568.1.S1_S_AT cell division cycle 40 homolog (yeast) gga
HG-U133_PLUS_2:203377_S_AT cell division cycle 40 homolog (yeast) hs
HG-U133A:203377_S_AT cell division cycle 40 homolog (yeast) hs
HG-U133A_2:203377_S_AT cell division cycle 40 homolog (yeast) hs
HU35KSUBA:HUM_ALU_AT cell division cycle 40 homolog (yeast) hs
HU35KSUBB:HUM_ALU_AT cell division cycle 40 homolog (yeast) hs
HU35KSUBC:HUM_ALU_AT cell division cycle 40 homolog (yeast) hs
HU35KSUBD:HUM_ALU_AT cell division cycle 40 homolog (yeast) hs
HUGENEFL:HUM_ALU_AT cell division cycle 40 homolog (yeast) hs
HC-G110:HUM_ALU_AT cell division cycle 40 homolog (yeast) hs
HU35KSUBB:RC_R70791_AT cell division cycle 40 homolog (yeast) hs
HU35KSUBD:RC_AA262761_AT cell division cycle 40 homolog (yeast) hs
U133_X3P:G7706656_3P_A_AT cell division cycle 40 homolog (yeast) hs
U133_X3P:HS.116674.0.S2_3P_AT cell division cycle 40 homolog (yeast) hs
HG-U133A_2:203376_AT cell division cycle 40 homolog (yeast) hs
HG-FOCUS:203376_AT cell division cycle 40 homolog (yeast) hs
HG-U133_PLUS_2:203376_AT cell division cycle 40 homolog (yeast) hs
HG-U133A:203376_AT cell division cycle 40 homolog (yeast) hs
HG-U95AV2:37481_AT cell division cycle 40 homolog (yeast) hs
HG-U95C:61649_AT cell division cycle 40 homolog (yeast) hs
HG-U95D:77496_AT cell division cycle 40 homolog (yeast) hs
HG-U95D:91158_AT cell division cycle 40 homolog (yeast) hs
MOUSE430_2:1457366_AT cell division cycle 40 homolog (yeast) mm
MOE430B:1457366_AT cell division cycle 40 homolog (yeast) mm
MG-U74BV2:108385_AT cell division cycle 40 homolog (yeast) mm
MOE430B:1453342_AT cell division cycle 40 homolog (yeast) mm
MOUSE430_2:1453342_AT cell division cycle 40 homolog (yeast) mm
MOE430B:1445348_AT cell division cycle 40 homolog (yeast) mm
MOUSE430_2:1445348_AT cell division cycle 40 homolog (yeast) mm
MU19KSUBC:TC40665_AT cell division cycle 40 homolog (yeast) mm
MOE430B:1442667_AT PREDICTED: cell division cycle 40 homolog [Mus musculus], mRNA sequence mm
MOUSE430_2:1442667_AT PREDICTED: cell division cycle 40 homolog [Mus musculus], mRNA sequence mm
RG-U34C:RC_AI170992_AT cell division cycle 40 homolog (yeast) (predicted) rn
RAE230A:1388724_AT cell division cycle 40 homolog (yeast) (predicted) rn
RAT230_2:1388724_AT cell division cycle 40 homolog (yeast) (predicted) rn
YEAST_2:1770832_AT Pre-mRNA splicing factor, important for catalytic step II of pre-mRNA splicing and plays a role in cell cycle progression; required for DNA synthesis during mitosis and meiosis; has WD repeats Sc
Protein Similarities
Method ID Description E-Value
blast AAB96707 Yeast prp (splicing factor) related protein 17 [Caenorhabditis elegans] ref|NP_492851.1| yeast PRP (splicing factor) related family member (prp-17) [Caenorhabditis elegans] 0.0
blast CAE73038 Hypothetical protein CBG20408 [Caenorhabditis briggsae] 0.0
blast AAD43464 pre-mRNA splicing factor [Heterodera glycines] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.0E-9
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 8.2E-9
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.036
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 7.4E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.2E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.8E-7
Sequence
Target Sequence 
>C. ELEGANS:185482_AT
actggacacgtaccgtattgcttgaaatatcatccagatgatgataagaatcatatgttt
ttggttggaatgcagaataagaagattattcaatgggattcaagatctggagaaattgtt
caagaatacgatcgtcacttgcaggcagtcaattctatcacatttttcgacaagaatcgt
cgtttcgcatccacttctgatgataaaagtgtcagaatttgggaatgggagatcccagta
gacacgaaacttattcaaaatgttggacttcatgcgattccgactatgacaaagagtcct
aatgataaatgggttgtgggacaatgcatggacaatcggatagtccttttccagcttgtc
gatgataagcttcgattctcaaaaaagaaggctttcagaggacacaatgcggctggatat
gcgtgcaatatcgatttttcgccggatcaaagtttcctaatctctggtgatgctgatgga
aaattgtttatttgggattggagaacacacaaaattgttggaaaatggaaagctcatgat
agcacttgtatcgcagcactatggcatccac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTGGACACGTACCGTATTGCTTGA 71 97 454 Antisense
AATACGATCGTCACTTGCAGGCAGT 22 173 578 Antisense
GCAGGCAGTCAATTCTATCACATTT 538 311 594 Antisense
GACAAGAATCGTCGTTTCGCATCCA 65 365 622 Antisense
GTTGGACTTCATGCGATTCCGACTA 542 435 715 Antisense
GACAATCGGATAGTCCTTTTCCAGC 695 363 784 Antisense
TCCTTTTCCAGCTTGTCGATGATAA 142 593 797 Antisense
GGCTTTCAGAGGACACAATGCGGCT 650 537 843 Antisense
TATCGATTTTTCGCCGGATCAAAGT 525 649 882 Antisense
AGTTTCCTAATCTCTGGTGATGCTG 577 59 904 Antisense
TGTATCGCAGCACTATGGCATCCAC 88 559 1000 Antisense
Sequence Source Affymetrix Proprietary Database