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[189513_s_at] PRP9 like protein

Description T13H5.4 /REP_DB=WormBase Gene ID /WP=CE23981 /TR=Q22469 /GB=CAA91420.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=PRP9 like protein
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 56      4grp_highest_8_8 > 42      4grp_high_8_8 > 48      6grp_highest_nonorm > 84      6grp_total > 56      4grp_total > 63      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 351
1 2 3 4 range
A 578.2
(3)
P 		425.8
(-1.1)
P 		535.2
(1.9)
P 		352.9
(-3)
P 		225
B 619.1
(3)
P 		473.1
(-1.6)
P 		427
(-3)
P 		432.8
(-2.8)
P 		192
C 703.4
(3)
P 		454.9
(-2.4)
P 		587.1
(0.5)
P 		425.4
(-3)
P 		278
avr 633.6
(3) 		451.3
(-1.8) 		516.4
(-0.1) 		403.7
(-3) 		230

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 513
1 2 3 4 5 6 range
A 588.7
(2.7)
P 		582.6
(2.5)
P 		595.5
(2.9)
P 		597.1
(3)
P 		430.4
(-3)
P 		534.8
(0.8)
P 		167
B 634.2
(0.3)
P 		651.3
(0.8)
P 		576.5
(-1.1)
P 		509.8
(-2.8)
P 		503
(-3)
P 		739.2
(3)
P 		236
C 533.8
(-1.5)
P 		662
(0)
P 		521.7
(-1.6)
P 		549
(-1.3)
P 		404.5
(-3)
P 		917.3
(3)
P 		513
avr 585.6
(-0.1) 		632
(0.9) 		564.6
(-0.5) 		552
(-0.8) 		446
(-3) 		730.4
(3) 		284
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 181
1 2 3 4 range
A 210.5
(3)
P 		92.4
(-1.5)
P 		139.9
(0.3)
P 		51.7
(-3)
P 		159
B 197.4
(3)
P 		116.8
(-1.6)
P 		98.9
(-2.6)
P 		92.2
(-3)
P 		105
C 232.9
(3)
P 		130.8
(-0.8)
P 		204.6
(1.9)
P 		71.7
(-3)
P 		161
avr 213.6
(3) 		113.3
(-1.2) 		147.8
(0.2) 		71.9
(-3) 		142

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 199
1 2 3 4 5 6 range
A 108.5
(-3)
P 		207.2
(3)
P 		129.7
(-1.7)
P 		151.4
(-0.4)
P 		129.9
(-1.7)
P 		130.2
(-1.7)
P 		99
B 220.7
(0.7)
P 		216.8
(0.5)
P 		140
(-2.8)
P 		135
(-3)
P 		204.4
(-0)
P 		275.6
(3)
P 		141
C 197.9
(-0.3)
P 		202
(-0.2)
P 		132.8
(-2.3)
P 		110.4
(-3)
P 		130.9
(-2.4)
P 		307.1
(3)
P 		197
avr 175.7
(-0.5) 		208.7
(1.4) 		134.2
(-2.9) 		132.3
(-3) 		155.1
(-1.7) 		237.6
(3) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189513_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3097
Sequence Type Exemplar sequence
Representative Public ID T13H5.4 NCBI
Target Description T13H5.4 /REP_DB=WormBase Gene ID /WP=CE23981 /TR=Q22469 /GB=CAA91420.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=PRP9 like protein
Cluster Evidence This cluster is supported by a 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_063398(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063398 NCBI Caenorhabditis elegans T13H5.4 (T13H5.4) mRNA, complete cds. 11/11 None
SNAP00000035144 ENSEMBL cdna:SNAP chromosome:CEL140:II:8523543:8525316:-1 11/11 None
GENEFINDER00000035149 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8523543:8525316:-1 11/11 None
T13H5.4.1 ENSEMBL cdna:known chromosome:CEL140:II:8523347:8525318:-1 gene:T13H5.4 11/11 None
T13H5.4.2 ENSEMBL cdna:known chromosome:CEL140:II:8523431:8525318:-1 gene:T13H5.4 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:8523539-8525313(-) 100.0 100.0
Public Domain and Genome References
Gene Title PRP9 like protein
Ensembl T13H5.4
Entrez Gene 174364 Entrez gene
SwissProt Q22469 EMBL-EBI
WormBase CE23981 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250715_AT splicing factor-related at
CANINE:1583344_AT similar to Splicing factor 3A subunit 3 (Spliceosome associated protein 61) (SAP 61) (SF3a60) cfa
CANINE_2:CFA.3337.1.A1_AT similar to Splicing factor 3A subunit 3 (Spliceosome associated protein 61) (SAP 61) (SF3a60) cfa
CANINE_2:CFAAFFX.4867.1.S1_S_AT similar to Splicing factor 3A subunit 3 (Spliceosome associated protein 61) (SAP 61) (SF3a60) cfa
DROSOPHILA_2:1630805_AT noisette dm
DROSGENOME1:154122_AT noisette dm
CHICKEN:GGA.2763.1.S1_A_AT splicing factor 3a, subunit 3, 60kDa gga
CHICKEN:GGA.2763.1.S1_AT splicing factor 3a, subunit 3, 60kDa gga
CHICKEN:GGA.2763.2.S1_AT splicing factor 3a, subunit 3, 60kDa gga
CHICKEN:GGA.2763.3.S1_A_AT splicing factor 3a, subunit 3, 60kDa gga
CHICKEN:GGA.2763.3.S1_X_AT splicing factor 3a, subunit 3, 60kDa gga
HG-U133_PLUS_2:203818_S_AT splicing factor 3a, subunit 3, 60kDa hs
HG-U133A:203818_S_AT splicing factor 3a, subunit 3, 60kDa hs
HG-FOCUS:203818_S_AT splicing factor 3a, subunit 3, 60kDa hs
HG-U133A_2:203818_S_AT splicing factor 3a, subunit 3, 60kDa hs
HU35KSUBD:RC_AA599259_S_AT splicing factor 3a, subunit 3, 60kDa hs
HUGENEFL:U08815_AT splicing factor 3a, subunit 3, 60kDa hs
U133_X3P:G5803166_3P_A_AT splicing factor 3a, subunit 3, 60kDa hs
HG-U95AV2:37379_AT splicing factor 3a, subunit 3, 60kDa hs
MU11KSUBB:MSA.18233.0_S_AT splicing factor 3a, subunit 3 mm
MG-U74AV2:96029_AT splicing factor 3a, subunit 3 mm
MOE430A:1423811_AT splicing factor 3a, subunit 3 mm
MOUSE430A_2:1423811_AT splicing factor 3a, subunit 3 mm
MOUSE430_2:1423811_AT splicing factor 3a, subunit 3 mm
MOE430A:1432488_A_AT splicing factor 3a, subunit 3 mm
MOUSE430A_2:1432488_A_AT splicing factor 3a, subunit 3 mm
MOUSE430_2:1432488_A_AT splicing factor 3a, subunit 3 mm
MU19KSUBA:TC14763_AT Splicing factor 3a, subunit 3, mRNA (cDNA clone MGC:11648 IMAGE:3598647) mm
MU19KSUBA:TC14763_G_AT Splicing factor 3a, subunit 3, mRNA (cDNA clone MGC:11648 IMAGE:3598647) mm
MU19KSUBA:TC16586_AT Splicing factor 3a, subunit 3, mRNA (cDNA clone MGC:11648 IMAGE:3598647) mm
MU19KSUBA:TC16586_G_AT Splicing factor 3a, subunit 3, mRNA (cDNA clone MGC:11648 IMAGE:3598647) mm
RG-U34C:RC_AA818612_AT splicing factor 3a, subunit 3 (predicted) rn
RAE230A:1388669_AT splicing factor 3a, subunit 3 (predicted) rn
RAT230_2:1388669_AT splicing factor 3a, subunit 3 (predicted) rn
YEAST_2:1773643_AT Subunit of the SF3a splicing factor complex, required for spliceosome assembly; acts after the formation of the U1 snRNP-pre-mRNA complex Sc
Protein Similarities
Method ID Description E-Value
blast CAA91420 Hypothetical protein T13H5.4 [Caenorhabditis elegans] ref|NP_495799.1| T13H5.4 [Caenorhabditis elegans] 0.0
blast CAE61010 Hypothetical protein CBG04748 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:189513_S_AT
tgtcttcaaataattccgatgccgaaaagcagaacgctaaaaatttgacattggcacaaa
cggaagctcatattatggcacttgctgatattctagctgaagaacgtactggaactcgcg
aaaatgtcgagagaaaacaagctagatctgctggagaggtcgaagaagaggaggaggagg
aaattgtgatcgaggaagaggaagaaattgatgagagtgcaccatataatccaaaaaatc
taccgcttggttgggatggaaagccaattccgtattggttgtacaaacttcacggcctca
atctatcatattcatgtgaaatctgtggaaatcaaacttacaaaggtccaaaggcgttcc
aaaagcatttcaacgagtggcgacattctcatggaatgagatgtcttggaattccgaata
cctctcatttcgccaacattacgaagatcaaagatgcactggatttatggaataaattga
aaaccgaaaaggagatggctaaatggaatccggacatcgatgaggagtacgaggactcca
gcggaaatgtggtcacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTCTTCAAATAATTCCGATGCCGA 586 557 917 Antisense
GACATTGGCACAAACGGAAGCTCAT 220 371 963 Antisense
AGCTCATATTATGGCACTTGCTGAT 36 79 981 Antisense
GAAGAACGTACTGGAACTCGCGAAA 489 339 1015 Antisense
AAATCTACCGCTTGGTTGGGATGGA 156 117 1152 Antisense
TTGGTTGTACAAACTTCACGGCCTC 424 683 1191 Antisense
TCACGGCCTCAATCTATCATATTCA 383 627 1206 Antisense
GGTCCAAAGGCGTTCCAAAAGCATT 255 265 1261 Antisense
TGGAATTCCGAATACCTCTCATTTC 603 545 1323 Antisense
ACCTCTCATTTCGCCAACATTACGA 560 87 1336 Antisense
GGACTCCAGCGGAAATGTGGTCACC 296 525 1449 Antisense
Sequence Source Affymetrix Proprietary Database