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[193332_at] KH domain family of RNA binding proteins.

Description Y18D10A.8 /REP_DB=WormBase Gene ID /WP=CE21404 /TR=Q9XW13 /GB=CAA22321.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=KH domain family of RNA binding proteins.
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 13      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_highest_nonorm > 41      6grp_total > 13      4grp_total > 53      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 795
1 2 3 4 range
A 1073.5
(3)
P 		669
(-0.4)
P 		647
(-0.6)
P 		355.1
(-3)
P 		718
B 970
(3)
P 		793.6
(1.4)
P 		519.2
(-1.2)
P 		326.9
(-3)
P 		643
C 1080.4
(3)
P 		791.3
(0.8)
P 		703.4
(0.2)
P 		285.7
(-3)
P 		795
avr 1041.3
(3) 		751.3
(0.6) 		623.2
(-0.5) 		322.6
(-3) 		719

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 690
1 2 3 4 5 6 range
A 848.5
(2.9)
P 		860.4
(3)
P 		696.3
(1.1)
P 		620.3
(0.1)
P 		564.3
(-0.5)
P 		355.2
(-3)
P 		505
B 964.1
(2.7)
P 		1002.3
(3)
P 		624.7
(-0.4)
P 		691.2
(0.2)
P 		545
(-1.1)
P 		330.9
(-3)
P 		671
C 959.3
(3)
P 		926.2
(2.7)
P 		800.1
(1.5)
P 		610.6
(-0.2)
P 		551.2
(-0.8)
P 		312.1
(-3)
P 		647
avr 924
(2.9) 		929.6
(3) 		707
(0.8) 		640.7
(0.1) 		553.5
(-0.8) 		332.7
(-3) 		597
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 343
1 2 3 4 range
A 390.8
(3)
P 		145.2
(-1.3)
P 		169.1
(-0.9)
P 		52
(-3)
P 		339
B 309.3
(3)
P 		196
(0.2)
P 		120.3
(-1.7)
P 		69.7
(-3)
P 		240
C 357.7
(3)
P 		227.5
(0.5)
P 		245.1
(0.8)
P 		48.2
(-3)
P 		310
avr 352.6
(3) 		189.6
(-0.3) 		178.2
(-0.5) 		56.6
(-3) 		296

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 269
1 2 3 4 5 6 range
A 156.4
(-1.1)
P 		306
(3)
P 		151.6
(-1.2)
P 		157.3
(-1.1)
P 		170.3
(-0.7)
P 		86.5
(-3)
P 		220
B 335.4
(3)
P 		333.6
(2.9)
P 		151.7
(-2.2)
P 		183.1
(-1.3)
P 		221.4
(-0.2)
P 		123.4
(-3)
P 		212
C 355.6
(3)
P 		282.6
(1.3)
P 		203.7
(-0.6)
P 		122.8
(-2.6)
P 		178.4
(-1.2)
P 		104.5
(-3)
P 		251
avr 282.5
(2.3) 		307.4
(3) 		169
(-1.1) 		154.4
(-1.5) 		190
(-0.5) 		104.8
(-3) 		203
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193332_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2541
Sequence Type Exemplar sequence
Representative Public ID Y18D10A.8 NCBI
Target Description Y18D10A.8 /REP_DB=WormBase Gene ID /WP=CE21404 /TR=Q9XW13 /GB=CAA22321.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=KH domain family of RNA binding proteins.
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_060845(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060845 NCBI Caenorhabditis elegans Y18D10A.8 (Y18D10A.8) mRNA, complete cds. 11/11 None
GENEFINDER00000000446 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12854638:12861053:1 11/11 None
SNAP00000000415 ENSEMBL cdna:SNAP chromosome:CEL140:I:12857346:12861053:1 11/11 None
Y18D10A.8 ENSEMBL cdna:known chromosome:CEL140:I:12852444:12861215:1 gene:Y18D10A.8 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
chrI:12852679-12860984(+) 97.97 100.0
Public Domain and Genome References
Gene Title KH domain family of RNA binding proteins.
Ensembl Y18D10A.8
Entrez Gene 173151 Entrez gene
SwissProt Q9XW13 EMBL-EBI
WormBase CE21404 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA22321 Hypothetical protein Y18D10A.8 [Caenorhabditis elegans] ref|NP_493246.1| Y18D10A.8 [Caenorhabditis elegans] 0.0
blast CAE63503 Hypothetical protein CBG07980 [Caenorhabditis briggsae] 0.0
blast CAA22321 Hypothetical protein Y18D10A.8 [Caenorhabditis elegans] ref|NP_493246.1| Y18D10A.8 [Caenorhabditis elegans] 1.0E-167
blast CAA22321 Hypothetical protein Y18D10A.8 [Caenorhabditis elegans] ref|NP_493246.1| Y18D10A.8 [Caenorhabditis elegans] 1.0E-142
blast CAE63503 Hypothetical protein CBG07980 [Caenorhabditis briggsae] 1.0E-125
blast CAE63503 Hypothetical protein CBG07980 [Caenorhabditis briggsae] 1.0E-104
blast EAL33642 GA15540-PA [Drosophila pseudoobscura] 1.0E-24
Protein Domains
Database ID Description E-Value
Pfam IPR004087 EMBL-EBI KH 3.0E-7
Pfam IPR004087 EMBL-EBI KH 3.0E-7
Pfam IPR004087 EMBL-EBI KH 3.0E-7
Sequence
Target Sequence 
>C. ELEGANS:193332_AT
aggacagacatgtcgattccacctccaaaccagtactcgggaatgtctagtgaaaatcaa
tcgataccttcacagcaaaatactgcaaacattgatgaagatgatgatgatgacgatgaa
gatattaaattagaacaaacttccgatggaaagctcacttttcactgtgatgatcctgaa
cttctcgccgctgcgcaagaggcactttccgcgtatttgagagtacgtgcccgtccgagt
gccgaggagcgtgaaaagaaaaaggaaagacgtaaatcgatgccccttcaacagaccgcc
cgtgatcaacaggaacctgtcatgttgaaaccggcaaaaacattccatggaagtactccc
aacctggctgatggtctcgcagcgacgactactgtagtcgtggcgagcatcccgcaaccg
atggttccgaatgtacatgcttctggtgataacccgatccgctacaatcgtgacactcta
atgaccgcccgtgacactaaacgtgctccaattccgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGACAGACATGTCGATTCCACCTC 94 55 967 Antisense
ACTGTGATGATCCTGAACTTCTCGC 577 97 1130 Antisense
TGCGCAAGAGGCACTTTCCGCGTAT 596 583 1158 Antisense
GAAAGACGTAAATCGATGCCCCTTC 40 361 1231 Antisense
TCCATGGAAGTACTCCCAACCTGGC 32 315 1310 Antisense
CCAACCTGGCTGATGGTCTCGCAGC 159 277 1325 Antisense
TCTCGCAGCGACGACTACTGTAGTC 553 609 1341 Antisense
GGTTCCGAATGTACATGCTTCTGGT 431 507 1389 Antisense
TGCTTCTGGTGATAACCCGATCCGC 568 579 1404 Antisense
CCGATCCGCTACAATCGTGACACTC 1 265 1420 Antisense
ACACTAAACGTGCTCCAATTCCGGA 700 109 1460 Antisense
Sequence Source Affymetrix Proprietary Database