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[189794_at] RNA binding protein

Description C07A4.1 /REP_DB=WormBase Gene ID /WP=CE07989 /TR=Q93194 /GB=CAB01717.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=RNA binding protein
Cluster 6grp_total > 81      4grp_total > 12      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 89.2
(2.5)
A 		59.6
(-1.2)
A 		45.4
(-3)
A 		93
(3)
A 		48
B 50
(-2.9)
A 		53.3
(-2.4)
A 		49
(-3)
A 		91.7
(3)
A 		43
C 63.3
(-1.3)
M 		48.7
(-3)
A 		56.9
(-2)
A 		99.5
(3)
A 		51
avr 67.5
(-0.7) 		53.9
(-2.5) 		50.4
(-3) 		94.7
(3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 69.4
(-1.3)
A 		79.3
(-0.7)
P 		65.8
(-1.5)
P 		143.1
(3)
P 		64.9
(-1.6)
A 		40.8
(-3)
A 		102
B 59.3
(-2.3)
A 		52.8
(-2.9)
M 		51.9
(-3)
A 		72.2
(-1.1)
A 		114.9
(3)
P 		55.6
(-2.6)
A 		63
C 67.8
(-1.6)
M 		53.1
(-3)
A 		101
(1.5)
P 		116.3
(3)
P 		84
(-0.1)
P 		57.5
(-2.6)
A 		63
avr 65.5
(-1.6) 		61.7
(-1.9) 		72.9
(-0.8) 		110.5
(3) 		87.9
(0.7) 		51.3
(-3) 		59
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 32.5
(3)
A 		12.9
(-2.7)
A 		11.9
(-3)
A 		13.6
(-2.5)
A 		21
B 15.9
(0.3)
A 		13.2
(-1.7)
A 		11.4
(-3)
A 		19.5
(3)
A 		8
C 21
(3)
M 		14
(-3)
A 		19.8
(2)
A 		16.8
(-0.6)
A 		7
avr 23.1
(3) 		13.4
(-3) 		14.4
(-2.4) 		16.6
(-1) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 12.8
(-2.3)
A 		28.2
(1.2)
P 		14.3
(-2)
P 		36.3
(3)
P 		19.6
(-0.8)
A 		9.9
(-3)
A 		26
B 20.6
(-1.6)
A 		17.6
(-2.1)
M 		12.6
(-3)
A 		19.1
(-1.9)
A 		46.7
(3)
P 		20.7
(-1.6)
A 		34
C 25.1
(1.9)
M 		16.2
(-3)
A 		25.7
(2.2)
P 		23.4
(0.9)
P 		27.2
(3)
P 		19.3
(-1.3)
A 		11
avr 19.5
(-1.8) 		20.7
(-1.3) 		17.5
(-2.6) 		26.3
(1) 		31.2
(3) 		16.6
(-3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189794_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16902
Sequence Type Exemplar sequence
Representative Public ID C07A4.1 NCBI
Target Description C07A4.1 /REP_DB=WormBase Gene ID /WP=CE07989 /TR=Q93194 /GB=CAB01717.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=RNA binding protein
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_077304(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077304 NCBI Caenorhabditis elegans C07A4.1 (C07A4.1) mRNA, complete cds. 11/11 None
GENEFINDER00000044350 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10167025:10171473:1 11/11 None
C07A4.1 ENSEMBL cdna:known chromosome:CEL140:X:10168835:10171253:1 gene:C07A4.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000044345 2/11 Cross Hyb Matching Probes None
SNAP00000044346 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:10168834-10171253(+) 100.0 100.0
Public Domain and Genome References
Gene Title RNA binding protein
Ensembl C07A4.1
Entrez Gene 182350 Entrez gene
SwissProt Q93194 EMBL-EBI
WormBase CE07989 Wormbase
Functional Annotations
Ortholog
ID Title Organism
YEAST_2:1778280_AT RNA binding protein that negatively regulates growth rate; interacts with the 3' UTR of the mitochondrial porin (POR1) mRNA and enhances its degradation; overexpression impairs mitochondrial function; expressed in stationary phase Sc
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 CAB01717 Hypothetical protein C07A4.1 [Caenorhabditis elegans] ref|NP_509705.1| C07A4.1 [Caenorhabditis elegans] 1.0E-154
blast CAE70533 Hypothetical protein CBG17168 [Caenorhabditis briggsae] 1.0E-126
blast CAB01717 Hypothetical protein C07A4.1 [Caenorhabditis elegans] ref|NP_509705.1| C07A4.1 [Caenorhabditis elegans] 1.0E-124
blast CAE70533 Hypothetical protein CBG17168 [Caenorhabditis briggsae] 1.0E-120
blast CAE59176 Hypothetical protein CBG02484 [Caenorhabditis briggsae] 5.0E-57
blast CAE59176 Hypothetical protein CBG02484 [Caenorhabditis briggsae] 5.0E-55
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.8E-25
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.6E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.8E-25
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.6E-21
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000044350 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:189794_AT
ggatacggatttgtgtcatttcccaacaaacaaaatgcagagaacgcgatagccggaatg
aacggaaaatggattgggaaacgagctgtgcggaccaactgggcggcacgaaaaaacagc
gaggagaatcgcgacaagctgacttttgaacaggtgttcaactcaacgaaagccgataac
acgtcagtttatgttgggaacataagtcaacagactacagacgctgatctccgcgattta
ttctcaacatatggtgatatagcggaagtgcgtattttcaaaacccaaaggtacgcgttc
gtcagatatgagaaaaaagagtgtgccacaaaagcaataatggagatgaatggaaaggag
atggctggaaatcaagtcagatgttcctggggaagaactcaggcagtggtaataaataat
cagttatcaaatgctttgaaaatcacagtatttaatttgcagcctaatcaagcattaaat
cctctcccaattgatttgtcatccttgatgatgcctacaatgcttccaactacaatccca
ctaattcaaaatcccttcttgaactacgagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATACGGATTTGTGTCATTTCCCA 554 509 217 Antisense
TGGGAAACGAGCTGTGCGGACCAAC 622 551 291 Antisense
GGAGAATCGCGACAAGCTGACTTTT 314 519 339 Antisense
CAGACTACAGACGCTGATCTCCGCG 475 205 427 Antisense
GATCTCCGCGATTTATTCTCAACAT 435 419 442 Antisense
ACCCAAAGGTACGCGTTCGTCAGAT 3 19 499 Antisense
ATCAAGCATTAAATCCTCTCCCAAT 150 27 683 Antisense
CTCTCCCAATTGATTTGTCATCCTT 340 231 698 Antisense
GATGATGCCTACAATGCTTCCAACT 45 411 723 Antisense
TTCCAACTACAATCCCACTAATTCA 449 693 740 Antisense
CAAAATCCCTTCTTGAACTACGAGC 74 191 763 Antisense
Sequence Source Affymetrix Proprietary Database