[Home] | [Total List]

[174888_at]

Description CEK042FYR_rc /REP_DB=TREMBL Accession /GB=D34209 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk42f11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 09      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 38      6grp_total > 91      4grp_total > 03      6grp_cgc > 97      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9421
1 2 3 4 range
A 4642.6
(-2.1)
P 		4710.8
(-2.1)
P 		3456.1
(-3)
P 		11406.9
(3)
P 		7951
B 4410.5
(-2.5)
P 		4073.2
(-2.8)
P 		3724.2
(-3)
P 		12727.3
(3)
P 		9003
C 4256.9
(-2.4)
P 		3668.4
(-2.8)
P 		3306.5
(-3)
P 		12208.6
(3)
P 		8902
avr 4436.7
(-2.3) 		4150.8
(-2.5) 		3495.6
(-3) 		12114.3
(3) 		8619

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2537
1 2 3 4 5 6 range
A 7202.7
(3)
P 		6219.7
(0.4)
P 		4908.8
(-3)
P 		6207.4
(0.4)
P 		6605.7
(1.4)
P 		5715.5
(-0.9)
P 		2294
B 5814.1
(-1)
P 		5143.6
(-3)
P 		5288.5
(-2.6)
P 		7108
(3)
P 		5458.6
(-2)
P 		5318.2
(-2.5)
P 		1964
C 5692.4
(-0.1)
P 		5266.5
(-1.3)
P 		6065.3
(1)
P 		5937.2
(0.6)
P 		6771.6
(3)
P 		4665.6
(-3)
P 		2106
avr 6236.4
(2.1) 		5543.3
(-1.4) 		5420.9
(-2) 		6417.5
(3) 		6278.6
(2.3) 		5233.1
(-3) 		1184
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1849
1 2 3 4 range
A 1690.4
(3)
P 		1022.6
(-2.1)
P 		903.5
(-3)
P 		1669.8
(2.8)
P 		787
B 1406.5
(-1.2)
P 		1006
(-2.5)
P 		863
(-3)
P 		2712.2
(3)
P 		1849
C 1409.2
(-0.9)
P 		1054.7
(-3)
P 		1152.4
(-2.4)
P 		2058.6
(3)
P 		1004
avr 1502
(-0.3) 		1027.8
(-2.7) 		973
(-3) 		2146.9
(3) 		1174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1149
1 2 3 4 5 6 range
A 1327.8
(-1.6)
P 		2212
(3)
P 		1069
(-3)
P 		1574.3
(-0.3)
P 		1993.3
(1.9)
P 		1391.5
(-1.3)
P 		1143
B 2023
(1.7)
P 		1712.1
(-0.3)
P 		1284.2
(-3)
P 		1882.7
(0.8)
P 		2217.8
(3)
P 		1983.1
(1.5)
P 		934
C 2109.9
(2.5)
P 		1607
(-0.5)
P 		1543.7
(-0.9)
P 		1194
(-3)
P 		2191.2
(3)
P 		1561.8
(-0.8)
P 		997
avr 1820.2
(0.7) 		1843.7
(0.9) 		1299
(-3) 		1550.3
(-1.2) 		2134.1
(3) 		1645.5
(-0.5) 		835
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174888_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22374
Sequence Type Exemplar sequence
Representative Public ID CEK042FYR NCBI
Target Description CEK042FYR_rc /REP_DB=TREMBL Accession /GB=D34209 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk42f11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_077858(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077858 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-2) (pab-2) mRNA, complete cds. 11/11 None
F18H3.3b ENSEMBL cdna:known chromosome:CEL140:X:13522181:13525738:-1 gene:F18H3.3 11/11 A 
F18H3.3a.3 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13527285:-1 gene:F18H3.3 11/11 None
F18H3.3a.4 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13525742:-1 gene:F18H3.3 11/11 None
F18H3.3a.1 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13527334:-1 gene:F18H3.3 11/11 None
F18H3.3a.2 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13527274:-1 gene:F18H3.3 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
181473 2 1 NM_077858 174888_at (11)
NM_077859 173881_at (11), 173882_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13522210-13522567(-) 100.0 100.0
Public Domain and Genome References
Ensembl F18H3.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90446 Hypothetical protein F18H3.3b [Caenorhabditis elegans] ref|NP_510259.1| PolyA Binding protein family member (pab-2) [Caenorhabditis elegans] 0.0
blast CAA90444 Hypothetical protein F18H3.3a [Caenorhabditis elegans] ref|NP_510260.1| PolyA Binding protein family member (pab-2) [Caenorhabditis elegans] 0.0
blast CAE63132 Hypothetical protein CBG07431 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.5E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.6E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.6E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.0E-25
Pfam IPR002004 EMBL-EBI Polyadenylate-binding protein/HECT-associated 1.9E-29
Sequence
Target Sequence 
>C. ELEGANS:174888_AT
aagctcagaacaaatcgtctcacccccgccagccagcaatttcattgaaattagatgctt
ctttctgaatgctttgatatttctgtgcaacaatgtgcaactttgtcatttcccgcctaa
taatatgctctttgtgttaataagtatattcccacttatataagttattgcaactctcac
ccctccccatcctcccataaaacctaaaatttttcttttgtaccccaatttgtacccaca
taacaattgatacatccattctgtggtttttccgatatcccaacatcttatcgttttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCTCAGAACAAATCGTCTCACCC 315 151 18 Antisense
GATGCTTCTTTCTGAATGCTTTGAT 243 413 71 Antisense
AATGCTTTGATATTTCTGTGCAACA 698 165 85 Antisense
AATGTGCAACTTTGTCATTTCCCGC 27 165 109 Antisense
ATTTCCCGCCTAATAATATGCTCTT 387 17 125 Antisense
ATAAGTTATTGCAACTCTCACCCCT 668 25 177 Antisense
TTTGTACCCCAATTTGTACCCACAT 248 665 234 Antisense
TACCCACATAACAATTGATACATCC 66 649 250 Antisense
GATACATCCATTCTGTGGTTTTTCC 701 423 266 Antisense
TCTGTGGTTTTTCCGATATCCCAAC 54 607 277 Antisense
GATATCCCAACATCTTATCGTTTTC 141 427 291 Antisense
Sequence Source Affymetrix Proprietary Database