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[191681_at]

Description K08A8.2 /REP_DB=WormBase Gene ID /WP=CE04725 /TR=Q21305 /GB=AAA79747.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=sex-determining protein SRY
Cluster 6grp_total > 07      4grp_total > 46      6grp_cgc > 13      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 738
1 2 3 4 range
A 858.2
(3)
P 		378.2
(-1.4)
A 		207.3
(-3)
A 		274.3
(-2.4)
A 		651
B 944.9
(3)
P 		338.4
(-2.2)
A 		250.4
(-3)
A 		300.4
(-2.6)
A 		695
C 892
(3)
P 		387.5
(-1.5)
A 		213.4
(-3)
A 		298
(-2.3)
A 		679
avr 898.4
(3) 		368
(-1.7) 		223.7
(-3) 		290.9
(-2.4) 		675

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 440
1 2 3 4 5 6 range
A 510.9
(3)
P 		458
(2)
P 		177.3
(-3)
A 		221.6
(-2.2)
A 		227.4
(-2.1)
A 		239
(-1.9)
A 		334
B 583.2
(3)
P 		318.7
(-1)
A 		259.9
(-1.9)
A 		244.9
(-2.2)
A 		191.2
(-3)
A 		218.9
(-2.6)
A 		392
C 617.3
(3)
P 		294.3
(-1.8)
A 		243.4
(-2.5)
A 		243.4
(-2.5)
A 		212.3
(-3)
A 		231.3
(-2.7)
A 		405
avr 570.5
(3) 		357
(-0.6) 		226.9
(-2.7) 		236.6
(-2.6) 		210.3
(-3) 		229.7
(-2.7) 		360
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 272
1 2 3 4 range
A 312.5
(3)
P 		82.1
(-2.1)
A 		54.2
(-2.7)
A 		40.1
(-3)
A 		272
B 301.3
(3)
P 		83.6
(-2.4)
A 		58
(-3)
A 		64
(-2.9)
A 		243
C 295.3
(3)
P 		111.4
(-1.5)
A 		74.4
(-2.4)
A 		50.2
(-3)
A 		245
avr 303
(3) 		92.4
(-2) 		62.2
(-2.7) 		51.4
(-3) 		252

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 94.2
(-0.3)
P 		162.9
(3)
P 		38.6
(-3)
A 		56.2
(-2.2)
A 		68.6
(-1.6)
A 		58.2
(-2.1)
A 		124
B 202.9
(3)
P 		106.1
(-1.2)
A 		63.1
(-3)
A 		64.9
(-2.9)
A 		77.7
(-2.4)
A 		81.6
(-2.2)
A 		140
C 228.8
(3)
P 		89.8
(-1.6)
A 		62
(-2.6)
A 		48.9
(-3)
A 		68.7
(-2.3)
A 		77.4
(-2)
A 		180
avr 175.3
(3) 		119.6
(0.2) 		54.6
(-3) 		56.7
(-2.9) 		71.7
(-2.1) 		72.4
(-2.1) 		121
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191681_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16106
Sequence Type Exemplar sequence
Representative Public ID K08A8.2 NCBI
Target Description K08A8.2 /REP_DB=WormBase Gene ID /WP=CE04725 /TR=Q21305 /GB=AAA79747.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=sex-determining protein SRY
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_171725(11), NM_171726(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171725 NCBI Caenorhabditis elegans SOX (mammalian SRY box) family member (sox-2) (sox-2) mRNA, complete cds. 11/11 None
NM_171726 NCBI Caenorhabditis elegans SOX (mammalian SRY box) family member (sox-2) (sox-2) mRNA, complete cds. 11/11 None
SNAP00000011619 ENSEMBL cdna:SNAP chromosome:CEL140:X:7458962:7459684:-1 11/11 None
GENEFINDER00000011627 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7458962:7460455:-1 11/11 None
K08A8.2a.1 ENSEMBL cdna:known chromosome:CEL140:X:7458238:7463681:-1 gene:K08A8.2 11/11 A 
K08A8.2a.2 ENSEMBL cdna:known chromosome:CEL140:X:7458238:7460493:-1 gene:K08A8.2 11/11 A 
K08A8.2b.2 ENSEMBL cdna:known chromosome:CEL140:X:7458962:7463681:-1 gene:K08A8.2 11/11 None
K08A8.2b.1 ENSEMBL cdna:known chromosome:CEL140:X:7458962:7460204:-1 gene:K08A8.2 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:7458960-7460427(-) 100.0 100.0
Public Domain and Genome References
Ensembl K08A8.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA79747 Sox (mammalian sry box) family protein 2, isoform a [Caenorhabditis elegans] ref|NP_741836.1| SOX (mammalian SRY box) family member (sox-2) [Caenorhabditis elegans] 1.0E-159
blast CAE70216 Hypothetical protein CBG16696 [Caenorhabditis briggsae] 1.0E-134
blast AAN72421 Sox (mammalian sry box) family protein 2, isoform b [Caenorhabditis elegans] ref|NP_741837.1| SOX (mammalian SRY box) family member (sox-2) [Caenorhabditis elegans] 1.0E-106
Protein Domains
Database ID Description E-Value
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 1.7E-32
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 8.8E-18
Sequence
Target Sequence 
>C. ELEGANS:191681_AT
cgactacgcgccattcatatgaaggaacacccagactacaaatacagaccgagaaggaag
acaaagtcaattaataagaaaaatggagcaccaattccatttggaaatttggacacaaaa
acgccatcttatccgacgttaacaaccaactggaatgcgacaaatcagtatattgatcag
tttcggtttgctccgtaccccacaacaactgtaatggatcaaattccattctcgttgaca
tacccagtgcattcggtcccaactgacaactcgtcgccttcgcagttccagccatctccg
atgagcacaaattttgctggcagctacctgacaccaaaatcagagagctcgccggttggc
agtgattctacagtcggcaccgttgactccagtcagtttcgtgcttactacgaccacaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGACTACGCGCCATTCATATGAAGG 281 251 328 Antisense
AACGCCATCTTATCCGACGTTAACA 226 143 447 Antisense
TGATCAGTTTCGGTTTGCTCCGTAC 601 563 501 Antisense
CCGTACCCCACAACAACTGTAATGG 614 263 520 Antisense
AAATTCCATTCTCGTTGACATACCC 405 115 548 Antisense
TTGACATACCCAGTGCATTCGGTCC 661 701 562 Antisense
ATTTTGCTGGCAGCTACCTGACACC 232 15 638 Antisense
GCTCGCCGGTTGGCAGTGATTCTAC 455 299 674 Antisense
ATTCTACAGTCGGCACCGTTGACTC 434 5 692 Antisense
CGTTGACTCCAGTCAGTTTCGTGCT 11 249 708 Antisense
GTTTCGTGCTTACTACGACCACACA 266 451 723 Antisense
Sequence Source Affymetrix Proprietary Database