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[173802_at]

Description CEK028FYR_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F35D6.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33278 /WB_GENE_ID=F35D6.1 /WP=CE07175 /CHR=4 /FEA=Genomic Cluster /DEF=locus:fem-1 (ST.LOUIS); C.elegans cDNA clone yk28f11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 66      4grp_highest_8_8 > 45      4grp_high_8_8 > 01      6grp_highest_nonorm > 74      6grp_total > 66      4grp_total > 14      6grp_highest_sub > Da      6grp_cgc > 37      6grp_high1_sub > Da      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 344
1 2 3 4 range
A 811.4
(3)
P 		589.8
(-3)
P 		622.2
(-2.1)
P 		734.2
(0.9)
P 		222
B 835
(1)
P 		633.7
(-3)
P 		730.9
(-1.1)
P 		933.9
(3)
P 		300
C 818.3
(1.6)
P 		722.4
(-1.6)
P 		681.5
(-3)
P 		859.9
(3)
P 		178
avr 821.6
(2.3) 		648.6
(-3) 		678.2
(-2.1) 		842.7
(3) 		194

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 534
1 2 3 4 5 6 range
A 675.9
(-0.6)
P 		638.2
(-1.2)
P 		528.8
(-3)
P 		676.6
(-0.6)
P 		609.2
(-1.7)
P 		892
(3)
P 		363
B 517.7
(-1.7)
P 		742.3
(2.2)
P 		675.6
(1.1)
P 		442.8
(-3)
P 		598.8
(-0.3)
P 		787.4
(3)
P 		345
C 675.1
(-1)
P 		591.1
(-2.1)
P 		700.5
(-0.7)
P 		825.7
(1)
P 		524.6
(-3)
P 		976.5
(3)
P 		452
avr 622.9
(-2.1) 		657.2
(-1.4) 		635
(-1.9) 		648.4
(-1.6) 		577.5
(-3) 		885.3
(3) 		308
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 188
1 2 3 4 range
A 295.4
(3)
P 		128
(-2.3)
P 		162.7
(-1.2)
P 		107.5
(-3)
P 		188
B 266.3
(3)
P 		156.5
(-3)
P 		169.4
(-2.3)
P 		199
(-0.7)
P 		110
C 270.9
(3)
P 		207.7
(-0)
P 		237.5
(1.4)
P 		145
(-3)
P 		126
avr 277.5
(3) 		164.1
(-2.4) 		189.9
(-1.1) 		150.5
(-3) 		127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 212
1 2 3 4 5 6 range
A 124.6
(-2.5)
P 		227
(3)
P 		115.2
(-3)
P 		171.6
(0)
P 		183.8
(0.7)
P 		217.2
(2.5)
P 		112
B 180.1
(-0.9)
P 		247.1
(1.4)
P 		164.1
(-1.4)
P 		117.3
(-3)
P 		243.3
(1.3)
P 		293.6
(3)
P 		176
C 250.2
(0.1)
P 		180.4
(-2.5)
P 		178.3
(-2.5)
P 		166
(-3)
P 		169.7
(-2.9)
P 		326.9
(3)
P 		161
avr 185
(-1.4) 		218.2
(0.1) 		152.5
(-3) 		151.6
(-3) 		198.9
(-0.8) 		279.2
(3) 		128
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173802_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25018
Sequence Type Exemplar sequence
Representative Public ID CEK028FYR NCBI
Target Description CEK028FYR_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F35D6.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33278 /WB_GENE_ID=F35D6.1 /WP=CE07175 /CHR=4 /FEA=Genomic Cluster /DEF=locus:fem-1 (ST.LOUIS); C.elegans cDNA clone yk28f11 : 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_068423(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068423 NCBI Caenorhabditis elegans FEMinization of XX and XO animals family member (fem-1) (fem-1) mRNA, complete cds. 11/11 None
F35D6.1a ENSEMBL cdna:known chromosome:CEL140:IV:5533151:5537917:-1 gene:F35D6.1 11/11 A 
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
177335 2 1 NM_068423 173802_at (11), 176622_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5533156-5537850(-) 100.0 100.0
Public Domain and Genome References
Ensembl F35D6.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA96093 Feminization of xx and xo animals protein 1, isoform a [Caenorhabditis elegans] ref|NP_500824.1| FEMinization of XX and XO animals family member (fem-1) [Caenorhabditis elegans] sp|P17221|FEM1_CAEEL Sex-determining protein fem-1 (Feminization of XX and XO animals protein 1) gb|AAA28055.1| fem-1 protein 0.0
blast CAE72700 Hypothetical protein CBG19924 [Caenorhabditis briggsae] 0.0
blast AAO64431 Fem1c [Danio rerio] 5.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR002110 EMBL-EBI Ankyrin 2.2E-9
Pfam IPR002110 EMBL-EBI Ankyrin 6.1E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.7E-6
Pfam IPR002110 EMBL-EBI Ankyrin 4.4E-8
Pfam IPR002110 EMBL-EBI Ankyrin 4.2E-7
Pfam IPR002110 EMBL-EBI Ankyrin 2.5
Pfam IPR002110 EMBL-EBI Ankyrin 25.0
Pfam IPR002110 EMBL-EBI Ankyrin 0.36
Sequence
Target Sequence 
>C. ELEGANS:173802_AT
gctcattagatgtttttttttgttttactcttcaatgcttctcggtgcttaacgtggcat
ttttaaatgtatttgtgctctttcacctttaaagatattaatctcgatctatccgtttag
ttgtctcttagcctctttcattatcgtcgctcaatgagaaaatacaagttgataccggta
gacgtgtctccctccccccattctgaatgtaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCATTAGATGTTTTTTTTTGTTT 409 301 1976 Antisense
TTTGTTTTACTCTTCAATGCTTCTC 396 667 1994 Antisense
CTCTTCAATGCTTCTCGGTGCTTAA 206 231 2003 Antisense
GCTTCTCGGTGCTTAACGTGGCATT 595 303 2012 Antisense
GGTGCTTAACGTGGCATTTTTAAAT 142 497 2019 Antisense
GTATTTGTGCTCTTTCACCTTTAAA 674 449 2044 Antisense
ATATTAATCTCGATCTATCCGTTTA 170 19 2070 Antisense
TATCCGTTTAGTTGTCTCTTAGCCT 587 653 2085 Antisense
CATTATCGTCGCTCAATGAGAAAAT 505 215 2114 Antisense
GTTGATACCGGTAGACGTGTCTCCC 560 433 2143 Antisense
CCCTCCCCCCATTCTGAATGTAATT 140 259 2165 Antisense
Sequence Source Affymetrix Proprietary Database