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[179427_at]

Description F28H6.2 /REP_DB=WormBase Gene ID /WP=CE18647 /TR=Q9XX95 /GB=CAA20933.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 03      6grp_total > 22      4grp_total > 46      6grp_high1_sub > De      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 90
1 2 3 4 range
A 84.3
(-2.9)
P 		117.5
(2.9)
P 		83.7
(-3)
A 		117.9
(3)
A 		34
B 109.5
(2.6)
P 		93.2
(0.5)
P 		112.9
(3)
A 		66
(-3)
M 		47
C 136.8
(3)
P 		60.5
(-2.1)
A 		46.7
(-3)
A 		47.3
(-3)
P 		90
avr 110.2
(3) 		90.4
(-0.6) 		81.1
(-2.3) 		77.1
(-3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 72.1
(-1.9)
A 		117.3
(3)
P 		91.1
(0.2)
P 		80.5
(-1)
A 		61.5
(-3)
A 		74.2
(-1.6)
A 		56
B 111.5
(2.1)
P 		82.2
(0.4)
P 		127.7
(3)
P 		72.4
(-0.2)
P 		61.2
(-0.9)
P 		24.1
(-3)
A 		104
C 127.8
(1.2)
P 		152.9
(3)
P 		101.3
(-0.6)
A 		67.3
(-3)
A 		86.1
(-1.7)
A 		77.3
(-2.3)
P 		86
avr 103.8
(1.6) 		117.5
(3) 		106.7
(1.9) 		73.4
(-1.5) 		69.6
(-1.9) 		58.5
(-3) 		59
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 30.7
(3)
P 		25.5
(0.7)
P 		21.9
(-0.9)
A 		17.3
(-3)
A 		13
B 34.9
(3)
P 		23
(-0.4)
P 		26.2
(0.5)
A 		14.1
(-3)
M 		21
C 45.3
(3)
P 		17.4
(-1.5)
A 		16.3
(-1.7)
A 		8
(-3)
P 		37
avr 37
(3) 		22
(-0.8) 		21.5
(-0.9) 		13.1
(-3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 13.3
(-3)
A 		41.7
(3)
P 		19.8
(-1.6)
P 		20.4
(-1.5)
A 		18.6
(-1.9)
A 		18.1
(-2)
A 		28
B 38.8
(3)
P 		27.4
(0.7)
P 		31
(1.4)
P 		19.2
(-0.9)
P 		24.9
(0.2)
P 		9
(-3)
A 		30
C 47.4
(3)
P 		46.6
(2.9)
P 		25.8
(-0.8)
A 		13.5
(-3)
A 		27.9
(-0.5)
A 		25.9
(-0.8)
P 		34
avr 33.2
(1.4) 		38.6
(3) 		25.5
(-0.8) 		17.7
(-3) 		23.8
(-1.2) 		17.7
(-3) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179427_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17523
Sequence Type Exemplar sequence
Representative Public ID F28H6.2 NCBI
Target Description F28H6.2 /REP_DB=WormBase Gene ID /WP=CE18647 /TR=Q9XX95 /GB=CAA20933.1 /SUBMIT=HINXTON /CHR=X /FEA=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_077955(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077955 NCBI Caenorhabditis elegans F28H6.2 (F28H6.2) mRNA, complete cds. 11/11 None
GENEFINDER00000032408 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14141866:14144145:1 11/11 None
SNAP00000032402 ENSEMBL cdna:SNAP chromosome:CEL140:X:14142840:14143949:1 10/11 None
F28H6.2 ENSEMBL cdna:known chromosome:CEL140:X:14141112:14144145:1 gene:F28H6.2 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:14141111-14144145(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F28H6.2
Entrez Gene 181523 Entrez gene
SwissProt Q9XX95 EMBL-EBI
WormBase CE18647 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA20933 Hypothetical protein F28H6.2 [Caenorhabditis elegans] ref|NP_510356.1| F28H6.2 [Caenorhabditis elegans] 1.0E-134
blast CAA20933 Hypothetical protein F28H6.2 [Caenorhabditis elegans] ref|NP_510356.1| F28H6.2 [Caenorhabditis elegans] 1.0E-117
blast CAA20933 Hypothetical protein F28H6.2 [Caenorhabditis elegans] ref|NP_510356.1| F28H6.2 [Caenorhabditis elegans] 2.0E-87
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 0.740000009536743
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 3.29999995231628
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 3.0
Sequence
Target Sequence 
>C. ELEGANS:179427_AT
aaagtcacattcggattcagcagatcaaacacttggaatcgaaagatcaagacgtgaaga
ttcttcgtcatccgaattatccgaatgttactctgcacagaattatttgattcaaaacgc
gtactactcggaaaaatatgctccagctatcatacacaaattgcttcctgcctttgaggc
aaacaaaaatccaaacaacgatgaaattttggaaataatggcagatacaggattatctcg
aaaagaagttcgtcgctggttccaatggcgtaatggcacaaacttcagaattgttaggcc
agtgactgaggagcagaaaaaacgggctgctgaacgagaaagaagcagagctcatttgaa
agtggacctggaacaggtgaatccaatactagaagctattcctacaaggaatcggaactg
tgtcgcggggggaatactgcaactagacgttcagtcatttaaagagcctgaactaattgt
atatggttggtggccatttgggactgtggaaatggatgatttcgaaacgtacgattatcc
ttgggatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGTCACATTCGGATTCAGCAGAT 159 123 234 Antisense
GATTCTTCGTCATCCGAATTATCCG 478 425 292 Antisense
GAATTATCCGAATGTTACTCTGCAC 379 325 307 Antisense
GATTCAAAACGCGTACTACTCGGAA 490 377 342 Antisense
ATATGCTCCAGCTATCATACACAAA 412 21 369 Antisense
CATACACAAATTGCTTCCTGCCTTT 657 213 384 Antisense
AAAGAAGTTCGTCGCTGGTTCCAAT 651 121 475 Antisense
AAGGAATCGGAACTGTGTCGCGGGG 36 159 639 Antisense
GTGTCGCGGGGGGAATACTGCAACT 449 487 653 Antisense
TTGGTGGCCATTTGGGACTGTGGAA 257 709 720 Antisense
GAAACGTACGATTATCCTTGGGATG 16 359 757 Antisense
Sequence Source Affymetrix Proprietary Database