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[192063_s_at] RNA-binding protein

Description T07D1.4 /REP_DB=WormBase Gene ID /WP=CE25105 /GEN=fox-1 /TR=Q22304 /GB=AAA83161.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=RNA-binding protein
Cluster 6grp_high1_10_10 > 18      4grp_high_8_8 > 26      6grp_total > 27      4grp_total > 30      6grp_cgc > 04      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 134
1 2 3 4 range
A 270.7
(3)
P 		162.8
(-3)
P 		168.5
(-2.7)
P 		198.5
(-1)
P 		108
B 281.5
(3)
P 		176.4
(-1.7)
A 		147.4
(-3)
A 		200.4
(-0.6)
P 		134
C 244.1
(1.9)
P 		250.5
(2.3)
P 		158.5
(-3)
P 		262.5
(3)
P 		104
avr 265.4
(3) 		196.6
(-0.8) 		158.1
(-3) 		220.5
(0.5) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 188
1 2 3 4 5 6 range
A 254.6
(3)
P 		233.2
(2)
P 		133
(-2.4)
P 		119.9
(-3)
P 		144.7
(-1.9)
P 		152.9
(-1.5)
P 		135
B 229.9
(3)
P 		179.3
(0.7)
P 		96.8
(-3)
P 		200.4
(1.7)
P 		186.7
(1.1)
P 		141.3
(-1)
P 		133
C 280.6
(3)
P 		214.9
(0.9)
P 		152.7
(-1.1)
P 		92.4
(-3)
A 		146.5
(-1.3)
P 		192.1
(0.2)
P 		188
avr 255
(3) 		209.1
(0.8) 		127.5
(-3) 		137.6
(-2.5) 		159.3
(-1.5) 		162.1
(-1.4) 		128
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 98.6
(3)
P 		35.3
(-2.5)
P 		44
(-1.7)
P 		29.1
(-3)
P 		70
B 89.8
(3)
P 		43.6
(-2)
A 		34.2
(-3)
A 		42.7
(-2.1)
P 		56
C 80.8
(3)
P 		72
(1.6)
P 		55.2
(-1.2)
P 		44.3
(-3)
P 		37
avr 89.7
(3) 		50.3
(-1.6) 		44.5
(-2.3) 		38.7
(-3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 46.9
(-1)
P 		82.9
(3)
P 		29
(-3)
P 		30.4
(-2.8)
P 		43.7
(-1.4)
P 		37.2
(-2.1)
P 		54
B 80
(3)
P 		59.7
(0.8)
P 		23.5
(-3)
P 		53.1
(0.1)
P 		75.8
(2.6)
P 		52.7
(0.1)
P 		57
C 104
(3)
P 		65.6
(0.3)
P 		38.9
(-1.6)
P 		18.6
(-3)
A 		47.4
(-1)
P 		64.3
(0.2)
P 		85
avr 77
(3) 		69.4
(2) 		30.5
(-3) 		34
(-2.5) 		55.6
(0.2) 		51.4
(-0.3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192063_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18350
Sequence Type Exemplar sequence
Representative Public ID T07D1.4 NCBI
Target Description T07D1.4 /REP_DB=WormBase Gene ID /WP=CE25105 /GEN=fox-1 /TR=Q22304 /GB=AAA83161.2 /SUBMIT=ST.LOUIS /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_076045(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076045 NCBI Caenorhabditis elegans Feminizing gene On X family member (fox-1) (fox-1) mRNA, complete cds. 11/11 A 
SNAP00000042792 ENSEMBL cdna:SNAP chromosome:CEL140:X:2446068:2448820:-1 11/11 None
GENEFINDER00000042794 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:2446068:2450497:-1 11/11 None
T07D1.4.1 ENSEMBL cdna:known chromosome:CEL140:X:2445493:2450497:-1 gene:T07D1.4 11/11 None
T07D1.4.2 ENSEMBL cdna:known chromosome:CEL140:X:2445493:2450501:-1 gene:T07D1.4 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
chrX:2446067-2450488(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA-binding protein
Gene Symbol fox-1
Ensembl T07D1.4
Entrez Gene 180549 Entrez gene
SwissProt Q10572 EMBL-EBI
WormBase CE25105 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast T16825 hypothetical protein T07D1.4 - Caenorhabditis elegans 1.0E-142
blast AAA83161 Feminizing gene on x protein 1 [Caenorhabditis elegans] ref|NP_508446.1| Feminizing gene On X family member (fox-1) [Caenorhabditis elegans] sp|Q10572|FOX1_CAEEL Sex determination protein fox-1 (Feminizing locus on X protein 1) 1.0E-140
blast T16825 hypothetical protein T07D1.4 - Caenorhabditis elegans 1.0E-140
blast AAA67723 ribonucleoprotein 1.0E-139
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.7E-19
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.7E-19
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.7E-19
Sequence
Target Sequence 
>C. ELEGANS:192063_S_AT
aaatgaacccactgatggcccaatcagctcttgccgcacaggctcagatgaacagagccc
tattgctccgtagtccattggtagcacaatctcttcttggtcgcggagccgctttaatcc
ccggaatgcaacagcccgcgttccaattgcaagcggctttggctggcaatccgctggcac
aacttcaaggtcaacctttgctgttcaacgctgcagcccttcaaacgaacgcactccaac
agtcggcgtttggaatggatccggccgccgttcaagctgctctgcttgccaatgagcaag
ctcggtttcaactcgctgctgccgctgctcaaggtaacgagtacattatgtaccatcaag
ccaaacaacaagaattaccaggacggatcccatcatctggaaatgcctcggcgtttggcg
aaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATGAACCCACTGATGGCCCAATC 560 119 746 Antisense
AACAGAGCCCTATTGCTCCGTAGTC 321 135 796 Antisense
TTGGTAGCACAATCTCTTCTTGGTC 63 709 823 Antisense
GCCGCTTTAATCCCCGGAATGCAAC 666 275 853 Antisense
AGCCCGCGTTCCAATTGCAAGCGGC 444 83 878 Antisense
TCAACCTTTGCTGTTCAACGCTGCA 283 631 936 Antisense
GAACGCACTCCAACAGTCGGCGTTT 324 345 972 Antisense
CGTTCAAGCTGCTCTGCTTGCCAAT 648 247 1014 Antisense
ATGAGCAAGCTCGGTTTCAACTCGC 600 45 1037 Antisense
GGATCCCATCATCTGGAAATGCCTC 33 513 1130 Antisense
GAAATGCCTCGGCGTTTGGCGAACA 651 361 1145 Antisense
Sequence Source Affymetrix Proprietary Database