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[176091_s_at]

Description C50C3.6 /REP_DB=WormBase Gene ID /WP=CE00122 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 36      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 76      6grp_total > 36      4grp_total > 54      6grp_highest_sub > Cu      6grp_cgc > 25      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1164
1 2 3 4 range
A 1767.9
(3)
P 		1098
(-0.5)
P 		982.3
(-1)
P 		603.9
(-3)
P 		1164
B 1714.7
(3)
P 		1058.2
(-1.2)
P 		1052.7
(-1.2)
P 		773.4
(-3)
P 		941
C 1583.1
(3)
P 		1086.5
(-1.5)
P 		1121.6
(-1.2)
P 		926.4
(-3)
P 		657
avr 1688.6
(3) 		1080.9
(-1) 		1052.2
(-1.1) 		767.9
(-3) 		921

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1023
1 2 3 4 5 6 range
A 1294.1
(0.5)
P 		1583.4
(2.5)
P 		779.6
(-3)
P 		1048.2
(-1.2)
P 		917.7
(-2)
P 		1651
(3)
P 		871
B 1083.6
(1.8)
P 		1192.4
(3)
P 		934.8
(0.3)
P 		1030.9
(1.3)
P 		628
(-3)
P 		1062.8
(1.6)
P 		564
C 1481.4
(3)
P 		1246.2
(0.5)
P 		1333.5
(1.4)
P 		914.5
(-3)
P 		970.5
(-2.4)
P 		1022.3
(-1.9)
P 		567
avr 1286.4
(2.4) 		1340.7
(3) 		1016
(-0.9) 		997.9
(-1.1) 		838.7
(-3) 		1245.4
(1.9) 		502
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 555
1 2 3 4 range
A 643.7
(3)
P 		238.3
(-1.4)
P 		256.8
(-1.2)
P 		88.4
(-3)
P 		555
B 546.8
(3)
P 		261.3
(-1.5)
P 		243.9
(-1.8)
P 		164.8
(-3)
P 		382
C 524
(3)
P 		312.4
(-0.5)
P 		390.9
(0.8)
P 		156.2
(-3)
P 		368
avr 571.5
(3) 		270.7
(-1.1) 		297.2
(-0.8) 		136.5
(-3) 		435

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 393
1 2 3 4 5 6 range
A 238.6
(-2)
P 		563.1
(3)
P 		169.8
(-3)
P 		265.9
(-1.5)
P 		276.9
(-1.4)
P 		402
(0.5)
P 		393
B 377
(2.3)
P 		396.9
(3)
P 		227
(-3)
P 		273.1
(-1.4)
P 		255.2
(-2)
P 		396.3
(3)
P 		170
C 549.1
(3)
P 		380.2
(0.2)
P 		339.4
(-0.4)
P 		183.9
(-3)
P 		314
(-0.9)
P 		342.2
(-0.4)
P 		365
avr 388.2
(1.3) 		446.7
(3) 		245.4
(-2.9) 		241
(-3) 		282
(-1.8) 		380.2
(1.1) 		206
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176091_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7078
Sequence Type Exemplar sequence
Representative Public ID C50C3.6 NCBI
Target Description C50C3.6 /REP_DB=WormBase Gene ID /WP=CE00122 /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_066384(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066384 NCBI Caenorhabditis elegans yeast PRP (splicing factor) related family member (prp-8) (prp-8) mRNA, complete cds. 11/11 None
SNAP00000020233 ENSEMBL cdna:SNAP chromosome:CEL140:III:8164299:8172219:1 11/11 None
GENEFINDER00000020243 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8164299:8172219:1 11/11 None
C50C3.6 ENSEMBL cdna:known chromosome:CEL140:III:8164299:8172611:1 gene:C50C3.6 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:8164294-8172215(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol prp-8
Ensembl C50C3.6
Entrez Gene 176153 Entrez gene
SwissProt P34369 EMBL-EBI
WormBase CE00122 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:252962_AT splicing factor, putative at
ATGENOME1:17402_AT splicing factor, putative at
CANINE:1592327_AT similar to Pre-mRNA processing splicing factor 8 (Splicing factor Prp8) (PRP8 homolog) (220 kDa U5 snRNP-specific protein) (p220) cfa
CANINE:1588866_AT similar to Pre-mRNA processing splicing factor 8 (Splicing factor Prp8) (PRP8 homolog) (220 kDa U5 snRNP-specific protein) (p220) cfa
CANINE_2:CFA.19130.1.S1_S_AT similar to Pre-mRNA processing splicing factor 8 (Splicing factor Prp8) (PRP8 homolog) (220 kDa U5 snRNP-specific protein) (p220) cfa
CANINE_2:CFA.3179.1.S1_AT similar to Pre-mRNA processing splicing factor 8 (Splicing factor Prp8) (PRP8 homolog) (220 kDa U5 snRNP-specific protein) (p220) cfa
CANINE_2:CFAAFFX.29336.1.S1_AT similar to Pre-mRNA processing splicing factor 8 (Splicing factor Prp8) (PRP8 homolog) (220 kDa U5 snRNP-specific protein) (p220) cfa
CANINE_2:CFAAFFX.29336.1.S1_S_AT similar to Pre-mRNA processing splicing factor 8 (Splicing factor Prp8) (PRP8 homolog) (220 kDa U5 snRNP-specific protein) (p220) cfa
DROSOPHILA_2:1640679_AT dm
DROSGENOME1:154647_AT dm
CHICKEN:GGA.1012.1.S1_AT similar to splicing factor Prp8 gga
CHICKEN:GGAAFFX.1877.1.S1_S_AT similar to splicing factor Prp8 gga
CHICKEN:GGAAFFX.25694.1.S1_S_AT similar to splicing factor Prp8 gga
HG-U133_PLUS_2:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
PLASMODIUM_ANOPHELES:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HG-FOCUS:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HG-U133A:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HG-U133B:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HG-U133A_2:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
U133_X3P:200000_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HU35KSUBA:RC_AA287104_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
U133_X3P:G5453983_3P_S_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HG-U95AV2:35753_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
HU35KSUBD:RC_AA399588_AT PRP8 pre-mRNA processing factor 8 homolog (yeast) hs
MOE430A:1422453_AT pre-mRNA processing factor 8 mm
MOUSE430_2:1422453_AT pre-mRNA processing factor 8 mm
MOUSE430A_2:1422453_AT pre-mRNA processing factor 8 mm
MU11KSUBA:AA155321_AT pre-mRNA processing factor 8 mm
MU11KSUBA:AA155321_G_AT pre-mRNA processing factor 8 mm
MG-U74AV2:98574_AT pre-mRNA processing factor 8 mm
MG-U74CV2:168106_AT pre-mRNA processing factor 8 mm
MG-U74BV2:104817_AT Pre-mRNA processing factor 8, mRNA (cDNA clone IMAGE:5030478) mm
MG-U74CV2:140687_AT Pre-mRNA processing factor 8, mRNA (cDNA clone IMAGE:5030478) mm
MU19KSUBB:TC26954_AT Pre-mRNA processing factor 8, mRNA (cDNA clone IMAGE:5030478) mm
RG-U34C:RC_AA817845_AT pre-mRNA processing factor 8 (predicted) rn
RAE230A:1367466_AT pre-mRNA processing factor 8 (predicted) rn
RAE230B:1367466_AT pre-mRNA processing factor 8 (predicted) rn
RAT230_2:1367466_AT pre-mRNA processing factor 8 (predicted) rn
YEAST_2:1777272_AT Component of the U4/U6-U5 snRNP complex, involved in the second catalytic step of splicing Sc
Protein Similarities
Method ID Description E-Value
blast AAA27977 Yeast prp (splicing factor) related protein 8 [Caenorhabditis elegans] ref|NP_498785.1| yeast PRP (splicing factor) related family member (prp-8) [Caenorhabditis elegans] sp|P34369|PRP8_CAEEL Pre-mRNA splicing factor PRP8 homolog 0.0
blast CAE70196 Hypothetical protein CBG16670 [Caenorhabditis briggsae] 0.0
blast XP_415805 PREDICTED: similar to splicing factor Prp8 [Gallus gallus] 0.0
Protein Domains
Database ID Description E-Value
scop a.2.3.Chaperone J-domain All alpha proteins; Long alpha-hairpin; Chaperone J-domain; Chaperone J-domain 4.19999980926514
Pfam IPR000555 EMBL-EBI Peptidase M67, Mov34 2.2E-16
Sequence
Target Sequence 
>C. ELEGANS:176091_S_AT
tggtgtatcgccacctgataatccacaagtaaaggagattcggtgcattgtcctcgttcc
acagactggaagtcatcagcaagtcaatcttccaacacaacttccggatcatgagcttct
tcgcgattttgagccacttggatggatgcacactcaaccaaatgagttgccacaattgtc
tccacaagatgtcacaactcatgccaagctattgaccgataacatcagctgggatggaga
aaagacagtgatgatcacgtgcagtttcactcctggatctgtttctctgactgcatataa
acttacaccatcgggatatgaatggggtaaagcgaataccgacaaaggaaataatccaaa
gggatatatgccaactcactatgagaaagtgcaaatgcttctatctgatcgattccttgg
atacttcatggttccatcaaacggagtgtggaactacaatttccaaggtcaacgttggtc
gcctgcaatgaagttcgatgtgtgtctttctaatccaaaggagtactatcatgaagatca
tcggccggttcacttccataactttaaggcattcgacgatccacttggaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGTGTATCGCCACCTGATAATCCA 497 553 6378 Antisense
ATTGTCCTCGTTCCACAGACTGGAA 276 5 6424 Antisense
ACAACTTCCGGATCATGAGCTTCTT 100 113 6474 Antisense
AGCTTCTTCGCGATTTTGAGCCACT 81 79 6491 Antisense
ATGAGTTGCCACAATTGTCTCCACA 511 45 6539 Antisense
GCAGTTTCACTCCTGGATCTGTTTC 155 313 6638 Antisense
GATCTGTTTCTCTGACTGCATATAA 241 419 6653 Antisense
AATGCTTCTATCTGATCGATTCCTT 35 167 6771 Antisense
TCAACGTTGGTCGCCTGCAATGAAG 293 631 6846 Antisense
TGAAGATCATCGGCCGGTTCACTTC 300 575 6909 Antisense
GGCATTCGACGATCCACTTGGAACA 570 535 6945 Antisense
Sequence Source Affymetrix Proprietary Database