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[176146_at]

Description Y65B4A.J /REP_DB=WormBase Gene ID /WP=CE25534 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 75      6grp_high1_10_10 > 66      4grp_high_8_8 > 08      6grp_highest_nonorm > 90      6grp_total > 57      4grp_total > 23      6grp_highest_sub > Cu      6grp_high1_sub > Da      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 199.8
(3)
P 		77.7
(-3)
M 		95.4
(-2.1)
P 		151.5
(0.6)
P 		122
B 192.6
(3)
P 		74.8
(-3)
P 		93.9
(-2)
P 		134.6
(0)
P 		118
C 221.4
(2.9)
P 		98.9
(-3)
P 		107.1
(-2.6)
P 		223.5
(3)
P 		125
avr 204.6
(3) 		83.8
(-3) 		98.8
(-2.3) 		169.9
(1.3) 		121

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 155
1 2 3 4 5 6 range
A 88
(-3)
P 		166.3
(0.4)
P 		155.6
(-0.1)
P 		122.6
(-1.5)
P 		151.4
(-0.3)
P 		227.4
(3)
P 		139
B 180
(1.2)
P 		144.5
(-1.1)
P 		155.7
(-0.4)
P 		170.4
(0.5)
P 		113.8
(-3)
P 		209.5
(3)
P 		96
C 219.2
(1.8)
P 		145.3
(-1.8)
P 		179.1
(-0.1)
P 		135.8
(-2.2)
P 		120.1
(-3)
P 		243.4
(3)
P 		123
avr 162.4
(-0.9) 		152
(-1.6) 		163.5
(-0.9) 		142.9
(-2.1) 		128.4
(-3) 		226.8
(3) 		98
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 72.7
(3)
P 		16.9
(-3)
M 		24.9
(-2.1)
P 		22.2
(-2.4)
P 		56
B 61.4
(3)
P 		18.5
(-3)
P 		21.8
(-2.5)
P 		28.7
(-1.6)
P 		43
C 73.3
(3)
P 		28.4
(-3)
P 		37.3
(-1.8)
P 		37.7
(-1.8)
P 		45
avr 69.1
(3) 		21.3
(-3) 		28
(-2.2) 		29.5
(-2) 		48

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 65
1 2 3 4 5 6 range
A 16.2
(-3)
P 		59.1
(3)
P 		33.9
(-0.5)
P 		31.1
(-0.9)
P 		45.7
(1.1)
P 		55.4
(2.5)
P 		43
B 62.6
(0.7)
P 		48.1
(-1.5)
P 		37.8
(-3)
P 		45.1
(-1.9)
P 		46.2
(-1.7)
P 		78.1
(3)
P 		40
C 81.3
(3)
P 		44.3
(-1.1)
P 		45.6
(-1)
P 		27.3
(-3)
P 		38.9
(-1.7)
P 		81.5
(3)
P 		54
avr 53.4
(0) 		50.5
(-0.4) 		39.1
(-2.3) 		34.5
(-3) 		43.6
(-1.5) 		71.7
(3) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176146_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18857
Sequence Type Exemplar sequence
Representative Public ID Y65B4A.J NCBI
Target Description Y65B4A.J /REP_DB=WormBase Gene ID /WP=CE25534 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_058364(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058364 NCBI Caenorhabditis elegans Y65B4A.1 (Y65B4A.1) mRNA, complete cds. 11/11 A 
SNAP00000032538 ENSEMBL cdna:SNAP chromosome:CEL140:I:654131:665844:1 11/11 None
GENEFINDER00000032541 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:654131:658647:1 11/11 None
Y65B4A.1 ENSEMBL cdna:known chromosome:CEL140:I:654112:658692:1 gene:Y65B4A.1 11/11 A 
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:652042-658647(+) 97.35 100.0
Public Domain and Genome References
Gene Title
Ensembl Y65B4A.1
Entrez Gene 171656 Entrez gene
SwissProt Q9BL57 EMBL-EBI
WormBase CE27299 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246499_AT RNA recognition motif (RRM)-containing protein at
CANINE:1600885_AT similar to HIV TAT specific factor 1 cfa
DROSOPHILA_2:1641529_S_AT dm
DROSGENOME1:154407_AT dm
CHICKEN:GGA.15900.1.S1_S_AT HIV TAT specific factor 1 gga
CHICKEN:GGA.2638.1.S1_S_AT HIV TAT specific factor 1 gga
HG-U133A:202602_S_AT HIV TAT specific factor 1 hs
HG-U133_PLUS_2:202602_S_AT HIV TAT specific factor 1 hs
HG-FOCUS:202602_S_AT HIV TAT specific factor 1 hs
HG-U133A_2:202602_S_AT HIV TAT specific factor 1 hs
HUGENEFL:U76992_AT HIV TAT specific factor 1 hs
U133_X3P:G7657636_3P_A_AT HIV TAT specific factor 1 hs
U133_X3P:HS.171595.0.S1_3P_A_AT HIV TAT specific factor 1 hs
HG-U133A_2:202601_S_AT HIV TAT specific factor 1 hs
HG-U133_PLUS_2:202601_S_AT HIV TAT specific factor 1 hs
HG-U133A:202601_S_AT HIV TAT specific factor 1 hs
HG-U95AV2:32695_AT HIV TAT specific factor 1 hs
HG-U95E:70289_AT HIV TAT specific factor 1 hs
HU35KSUBA:AA085789_AT HIV TAT specific factor 1 hs
MU11KSUBA:C79507_RC_F_AT HIV TAT specific factor 1 mm
MU11KSUBA:AA208703_AT HIV TAT specific factor 1 mm
MG-U74AV2:161691_AT HIV TAT specific factor 1 mm
MG-U74AV2:160669_AT HIV TAT specific factor 1 mm
MOE430A:1431059_X_AT HIV TAT specific factor 1 mm
MOUSE430A_2:1431059_X_AT HIV TAT specific factor 1 mm
MOUSE430_2:1431059_X_AT HIV TAT specific factor 1 mm
MOE430A:1431058_AT HIV TAT specific factor 1 mm
MOUSE430A_2:1431058_AT HIV TAT specific factor 1 mm
MOUSE430_2:1431058_AT HIV TAT specific factor 1 mm
MOE430A:1454760_AT HIV TAT specific factor 1 mm
MOUSE430A_2:1454760_AT HIV TAT specific factor 1 mm
MOUSE430_2:1454760_AT HIV TAT specific factor 1 mm
MU19KSUBB:TC33031_AT HIV TAT specific factor 1 (Htatsf1), mRNA mm
MU19KSUBB:TC33031_G_AT HIV TAT specific factor 1 (Htatsf1), mRNA mm
MU19KSUBB:TC33391_AT HIV TAT specific factor 1 (Htatsf1), mRNA mm
RG-U34B:RC_AA924486_AT similar to HIV TAT specific factor 1 rn
RAE230B:1390803_AT similar to HIV TAT specific factor 1 rn
RAT230_2:1390803_AT similar to HIV TAT specific factor 1 rn
RAE230B:1384652_AT Similar to HIV TAT specific factor 1 rn
RAT230_2:1384652_AT Similar to HIV TAT specific factor 1 rn
RG-U34C:RC_AI137058_AT Similar to HIV TAT specific factor 1 rn
YEAST_2:1775428_AT Protein that binds to U2 snRNA and Prp11p, may be involved in U2 snRNA folding; contains two RNA recognition motifs (RRMs) Sc
Protein Similarities
Method ID Description E-Value
blast AAK29956 Hypothetical protein Y65B4A.1 [Caenorhabditis elegans] ref|NP_490765.1| Y65B4A.1 [Caenorhabditis elegans] 0.0
blast CAE71584 Hypothetical protein CBG18539 [Caenorhabditis briggsae] 7.0E-67
blast CAE71584 Hypothetical protein CBG18539 [Caenorhabditis briggsae] 8.0E-67
blast AAN12167 CG6049-PC, isoform C [Drosophila melanogaster] gb|AAF51719.1| CG6049-PB, isoform B [Drosophila melanogaster] gb|AAN12166.1| CG6049-PA, isoform A [Drosophila melanogaster] ref|NP_730629.1| CG6049-PC, isoform C [Drosophila melanogaster] ref|NP_730628.1| CG6049-PB, isoform B [Drosophila melanogaster] ref|NP_649313.1| CG6049-PA, isoform A [Drosophila melanogaster] gb|AAL28893.1| LD27763p [Drosophila melanogaster] 7.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.0E-9
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.7E-6
Sequence
Target Sequence 
>C. ELEGANS:176146_AT
gaaggaatctgtcgagcttgcctgtaacattctcgatggagcgaacttaaacgggcggga
agtgaaggttgaggaagctcgatttgagatgaagggcgattttgatccggcgaggaagcg
gcggaaattgactgcggcgcagaaaaaacgatatatggagcagcagaataaaatcttcga
atggacgcccgataagccacgtaactaccgtccaaagtcggactgtacggttattgtcaa
aaatctgttcactcaggaaatgatgaacaagaatgcggcgttgatgttggatttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGAATCTGTCGAGCTTGCCTGT 653 333 1014 Antisense
GCTTGCCTGTAACATTCTCGATGGA 688 303 1029 Antisense
GATGGAGCGAACTTAAACGGGCGGG 672 405 1048 Antisense
TGAAGGGCGATTTTGATCCGGCGAG 601 571 1103 Antisense
GATCCGGCGAGGAAGCGGCGGAAAT 21 415 1117 Antisense
GCGGCGGAAATTGACTGCGGCGCAG 564 291 1131 Antisense
TCGAATGGACGCCCGATAAGCCACG 662 599 1190 Antisense
CGATAAGCCACGTAACTACCGTCCA 473 247 1203 Antisense
GTAACTACCGTCCAAAGTCGGACTG 273 457 1214 Antisense
AAGTCGGACTGTACGGTTATTGTCA 125 153 1228 Antisense
GAATGCGGCGTTGATGTTGGATTTG 125 331 1284 Antisense
Sequence Source Affymetrix Proprietary Database