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[175744_s_at]

Description g3334905 /REP_DB=GenBank Identifier /GB=U79157.1 /PROTEIN_GB=AAC26982.1 /CHR=3 /FEA=Mapped Transcript /DEF=splicing factor U2AF65
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 36      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 30      6grp_total > 27      4grp_total > 54      6grp_highest_sub > Cu      6grp_cgc > 05      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 826
1 2 3 4 range
A 1682.2
(3)
P 		1220.2
(-1.1)
P 		1172.6
(-1.5)
P 		1007.7
(-3)
P 		675
B 1544.1
(3)
P 		1284.5
(0.5)
P 		1209.7
(-0.3)
P 		931.1
(-3)
P 		613
C 1624.4
(3)
P 		1218.4
(-0.2)
P 		1347.1
(0.8)
P 		856.4
(-3)
P 		768
avr 1616.9
(3) 		1241
(-0.3) 		1243.1
(-0.3) 		931.7
(-3) 		685

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 912
1 2 3 4 5 6 range
A 1104.2
(2.1)
P 		1188.8
(3)
P 		643
(-2.7)
P 		689.5
(-2.2)
P 		616
(-3)
P 		1105.9
(2.1)
P 		573
B 1018.1
(3)
P 		999.5
(2.7)
P 		704.5
(-1.8)
P 		692.5
(-1.9)
P 		622.8
(-3)
P 		850.2
(0.5)
P 		395
C 1412.1
(3)
P 		785.8
(-1.1)
P 		1048.2
(0.6)
P 		500.4
(-3)
P 		880.8
(-0.5)
P 		884.8
(-0.5)
P 		912
avr 1178.1
(3) 		991.4
(1) 		798.6
(-1.1) 		627.5
(-3) 		706.5
(-2.1) 		947
(0.5) 		551
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 468
1 2 3 4 range
A 612.5
(3)
P 		264.9
(-1.5)
P 		306.5
(-0.9)
P 		147.5
(-3)
P 		465
B 492.4
(3)
P 		317.2
(-0.6)
P 		280.3
(-1.3)
P 		198.4
(-3)
P 		294
C 537.7
(3)
P 		350.3
(0.1)
P 		469.5
(2)
P 		144.4
(-3)
P 		393
avr 547.5
(3) 		310.8
(-0.7) 		352.1
(-0.1) 		163.4
(-3) 		384

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 423
1 2 3 4 5 6 range
A 203.5
(-1.7)
P 		422.8
(3)
P 		140
(-3)
P 		174.9
(-2.3)
P 		185.9
(-2)
P 		269.3
(-0.3)
P 		283
B 354.2
(3)
P 		332.7
(2.3)
P 		171.1
(-3)
P 		183.4
(-2.6)
P 		253
(-0.3)
P 		317
(1.8)
P 		183
C 523.4
(3)
P 		239.8
(-1)
P 		266.8
(-0.6)
P 		100.6
(-3)
P 		285
(-0.4)
P 		296.2
(-0.2)
P 		423
avr 360.4
(3) 		331.8
(2.2) 		192.6
(-1.9) 		153
(-3) 		241.3
(-0.4) 		294.2
(1.1) 		207
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175744_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19831
Sequence Type Exemplar sequence
Representative Public ID 3334905 NCBI
Target Description g3334905 /REP_DB=GenBank Identifier /GB=U79157.1 /PROTEIN_GB=AAC26982.1 /CHR=3 /FEA=Mapped Transcript /DEF=splicing factor U2AF65
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_001027796(11), NM_064925(11), NM_001027799(11), NM_001027798(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027796 NCBI Caenorhabditis elegans U2AF splicing factor family member (uaf-1) (uaf-1) mRNA, complete cds. 11/11 None
NM_064925 NCBI Caenorhabditis elegans U2AF splicing factor family member (uaf-1) (uaf-1) mRNA, complete cds. 11/11 A 
NM_001027799 NCBI Caenorhabditis elegans U2AF splicing factor family member (uaf-1) (uaf-1) mRNA, complete cds. 11/11 None
NM_001027798 NCBI Caenorhabditis elegans U2AF splicing factor family member (uaf-1) (uaf-1) mRNA, complete cds. 11/11 None
GENEFINDER00000007835 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1063006:1076543:-1 11/11 None
Y92C3B.2a.2 ENSEMBL cdna:known chromosome:CEL140:III:1062781:1076543:-1 gene:Y92C3B.2 11/11 A 
Y92C3B.2b.1 ENSEMBL cdna:known chromosome:CEL140:III:1062781:1065083:-1 gene:Y92C3B.2 11/11 None
Y92C3B.2a.1 ENSEMBL cdna:known chromosome:CEL140:III:1062783:1076543:-1 gene:Y92C3B.2 11/11 A 
Y92C3B.2b.2 ENSEMBL cdna:known chromosome:CEL140:III:1062806:1068054:-1 gene:Y92C3B.2 11/11 None
Y92C3B.2c ENSEMBL cdna:known chromosome:CEL140:III:1063006:1076543:-1 gene:Y92C3B.2 11/11 A 
Y92C3B.2d ENSEMBL cdna:known chromosome:CEL140:III:1063006:1076543:-1 gene:Y92C3B.2 11/11 A 
Y92C3B.2b.3 ENSEMBL cdna:known chromosome:CEL140:III:1063006:1067944:-1 gene:Y92C3B.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_065007 2/11 Cross Hyb Matching Probes None
SNAP00000008917 2/11 Cross Hyb Matching Probes None
GENEFINDER00000008939 2/11 Cross Hyb Matching Probes None
Y82E9BR.2 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:1062780-1076543(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y92C3B.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL00879 U2af splicing factor protein 1, isoform c [Caenorhabditis elegans] ref|NP_001022969.1| U2AF splicing factor family member (uaf-1) [Caenorhabditis elegans] 0.0
blast AAM44400 U2af splicing factor protein 1, isoform d [Caenorhabditis elegans] ref|NP_001022970.1| U2AF splicing factor family member (uaf-1) [Caenorhabditis elegans] 0.0
blast AAK29989 U2af splicing factor protein 1, isoform a [Caenorhabditis elegans] ref|NP_001022967.1| U2AF splicing factor family member (uaf-1) [Caenorhabditis elegans] sp|P90978|U2AF2_CAEEL Splicing factor U2AF 65 kDa subunit (U2 auxiliary factor 65 kDa subunit) (U2 snRNP auxiliary factor large subunit) (U2AF65) gb|AAC26982.1| splicing factor U2AF65 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.4E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.1E-17
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-7
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-7
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.4E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.1E-17
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-7
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.4E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.1E-17
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-7
Sequence
Target Sequence 
>C. ELEGANS:175744_S_AT
caactcggcgacaagcagctcgtcgttcaacttgcctgtgctaatcaacaacgtcataac
acaaatctgccgaactctgcgtcagcaattgccggaattgatctctcccaaggagccggc
cgagccactgagatcctttgtctcatgaatatggtgactgaggatgagctgaaagctgat
gatgagtacgaagagattctggaggatgtacgcgatgaatgctcaaaatatggaattgtt
cgctcgttggaaattccaagaccgtatgaggatcatccggttccaggtgttgggaaggtt
ttcgtcgaattcgcctccacatccgactgtcaacgtgctcaggctgctctgaccggacga
aaattcgcgaatcgcaccgtcgtcacctcctactatgacgtcgacaagtaccacaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACTCGGCGACAAGCAGCTCGTCG 622 187 1075 Antisense
TCGTTCAACTTGCCTGTGCTAATCA 102 605 1097 Antisense
CATAACACAAATCTGCCGAACTCTG 577 213 1129 Antisense
CGAACTCTGCGTCAGCAATTGCCGG 92 253 1145 Antisense
GAGCCACTGAGATCCTTTGTCTCAT 680 383 1196 Antisense
ATTGTTCGCTCGTTGGAAATTCCAA 181 3 1309 Antisense
GATCATCCGGTTCCAGGTGTTGGGA 477 419 1345 Antisense
GCTGCTCTGACCGGACGAAAATTCG 4 279 1417 Antisense
AAAATTCGCGAATCGCACCGTCGTC 12 135 1434 Antisense
TCGTCACCTCCTACTATGACGTCGA 130 605 1454 Antisense
TATGACGTCGACAAGTACCACAATC 71 655 1468 Antisense
Sequence Source GenBank