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[194172_s_at]

Description C39026_rc /REP_DB=TREMBL Accession /GB=C39026 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk504g2 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 66      4grp_high_8_8 > 07      6grp_total > 68      4grp_total > 07      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 72.8
(-2.4)
P 		70.6
(-3)
P 		88.3
(1.5)
P 		94
(3)
P 		23
B 90.2
(2.6)
P 		61.7
(-1.3)
A 		49.2
(-3)
M 		92.9
(3)
P 		44
C 86
(2.8)
P 		60.1
(-3)
A 		87.1
(3)
P 		63.9
(-2.2)
A 		27
avr 83
(2.8) 		64.1
(-3) 		74.9
(0.3) 		83.6
(3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 133
1 2 3 4 5 6 range
A 65.7
(-3)
A 		72.3
(-2.1)
P 		76.2
(-1.6)
P 		105.1
(2.3)
P 		84
(-0.5)
M 		110
(3)
P 		44
B 81.1
(-1.9)
P 		114.1
(-0.1)
P 		64.7
(-2.8)
P 		61.2
(-3)
M 		71
(-2.5)
P 		172.4
(3)
P 		111
C 101
(-0.2)
P 		94.7
(-0.5)
P 		46.9
(-2.7)
A 		39.5
(-3)
A 		60
(-2.1)
P 		170.6
(3)
P 		131
avr 82.6
(-1.6) 		93.7
(-0.9) 		62.6
(-3) 		68.6
(-2.6) 		71.7
(-2.4) 		151
(3) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 26.5
(3)
P 		15.3
(-2.3)
P 		23.1
(1.4)
P 		13.8
(-3)
P 		13
B 28.7
(3)
P 		15.2
(-1.7)
A 		11.4
(-3)
M 		19.8
(-0.1)
P 		17
C 28.5
(2.4)
P 		17.3
(-1)
A 		30.4
(3)
P 		10.8
(-3)
A 		20
avr 27.9
(3) 		15.9
(-2.5) 		21.6
(0.1) 		14.8
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 12.1
(-3)
A 		25.7
(2.6)
P 		16.6
(-1.2)
P 		26.7
(3)
P 		25.3
(2.4)
M 		26.8
(3)
P 		15
B 28.2
(-1.5)
P 		38
(-0.2)
P 		15.7
(-3)
P 		16.2
(-2.9)
M 		28.8
(-1.4)
P 		64.3
(3)
P 		49
C 37.5
(0.6)
P 		28.9
(-0.4)
P 		11.9
(-2.5)
A 		8
(-3)
A 		19.4
(-1.6)
P 		57.1
(3)
P 		49
avr 25.9
(-1.1) 		30.9
(-0.2) 		14.7
(-3) 		17
(-2.6) 		24.5
(-1.3) 		49.4
(3) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194172_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27951
Sequence Type Exemplar sequence
Representative Public ID C39026 NCBI
Target Description C39026_rc /REP_DB=TREMBL Accession /GB=C39026 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk504g2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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:656705-658595(+) 83.83 83.83
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:194172_S_AT
tgttaagaaagtcgtcgtttatgcgaaccacccggacggcgtcgtatcggtaacctttcc
tacgacagaagaatcggatatggctgtaaaatatcttcacggacgagtagttgacggtcg
gaaattgacagccgagctctgggatggccggacaaagtttaaggtcgaggagacggaaga
ggatgaggagaagcgtcggaaagag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTAAGAAAGTCGTCGTTTATGCG 587 559 31 Antisense
GAAGAATCGGATATGGCTGTAAAAT 91 339 98 Antisense
ATGGCTGTAAAATATCTTCACGGAC 455 51 110 Antisense
ATATCTTCACGGACGAGTAGTTGAC 226 19 121 Antisense
CACGGACGAGTAGTTGACGGTCGGA 388 199 128 Antisense
GTTGACGGTCGGAAATTGACAGCCG 212 435 140 Antisense
TTGACAGCCGAGCTCTGGGATGGCC 631 701 155 Antisense
AGCTCTGGGATGGCCGGACAAAGTT 230 79 165 Antisense
TGGCCGGACAAAGTTTAAGGTCGAG 672 533 175 Antisense
AAGGTCGAGGAGACGGAAGAGGATG 708 155 191 Antisense
GGATGAGGAGAAGCGTCGGAAAGAG 433 513 211 Antisense
Sequence Source Affymetrix Proprietary Database