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[190942_at] homeobox

Description T26C11.6 /REP_DB=WormBase Gene ID /WP=CE14182 /GEN=ceh-21 /TR=SW:Q22811 /GB=AAC48216.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeobox
Cluster 6grp_high1_10_10 > 59      6grp_total > 48      4grp_total > 22      6grp_cgc > 19      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 111
1 2 3 4 range
A 232.8
(3)
P 		170.2
(-0.7)
A 		130
(-3)
A 		224.2
(2.5)
P 		103
B 208.4
(3)
P 		145.3
(-1.4)
P 		123.3
(-3)
A 		180.9
(1.1)
P 		85
C 166.1
(-1.7)
P 		151.1
(-2.8)
A 		147.9
(-3)
A 		234.7
(3)
P 		87
avr 202.4
(2.2) 		155.5
(-1.4) 		133.7
(-3) 		213.3
(3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 163.7
(1.1)
A 		187.1
(3)
P 		113.1
(-3)
P 		160.9
(0.9)
P 		112.6
(-3)
P 		178.8
(2.3)
P 		75
B 169.3
(2)
P 		164.9
(1.6)
P 		122.7
(-3)
P 		141.6
(-1)
P 		157.5
(0.8)
M 		178.1
(3)
P 		55
C 146.5
(-1.9)
P 		136.1
(-3)
P 		157.8
(-0.7)
A 		189.1
(2.7)
A 		191.9
(3)
P 		155.9
(-0.9)
P 		56
avr 159.8
(1.3) 		162.7
(1.8) 		131.2
(-3) 		163.9
(1.9) 		154
(0.4) 		170.9
(3) 		40
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 84.7
(3)
P 		37
(-2.5)
A 		34
(-2.9)
A 		32.8
(-3)
P 		52
B 66.4
(3)
P 		35.9
(-1.8)
P 		28.6
(-3)
A 		38.6
(-1.4)
P 		38
C 55
(3)
P 		43.4
(-1.5)
A 		51.5
(1.6)
A 		39.6
(-3)
P 		15
avr 68.7
(3) 		38.8
(-2.7) 		38
(-2.8) 		37
(-3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 30.2
(-2.2)
A 		66.6
(3)
P 		24.6
(-3)
P 		40.8
(-0.7)
P 		34
(-1.7)
P 		43.5
(-0.3)
P 		42
B 58.9
(1.8)
P 		54.9
(1.1)
P 		29.8
(-3)
P 		37.5
(-1.7)
P 		64
(2.6)
M 		66.4
(3)
P 		37
C 54.3
(1.1)
P 		41.5
(-2.1)
P 		40.2
(-2.5)
A 		38
(-3)
A 		62.1
(3)
P 		52.2
(0.5)
P 		24
avr 47.8
(1.3) 		54.3
(3) 		31.5
(-3) 		38.8
(-1.1) 		53.4
(2.8) 		54
(2.9) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190942_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18279
Sequence Type Exemplar sequence
Representative Public ID T26C11.6 NCBI
Target Description T26C11.6 /REP_DB=WormBase Gene ID /WP=CE14182 /GEN=ceh-21 /TR=SW:Q22811 /GB=AAC48216.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeobox
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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_075940(11), AF023470(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075940 NCBI Caenorhabditis elegans T26C11.6 (homeobox) mRNA, complete cds. 11/11 A 
AF023470 NCBI Caenorhabditis elegans CEH-21 (ceh-21) mRNA, partial cds. 10/11 A 
SNAP00000040395 ENSEMBL cdna:SNAP chromosome:CEL140:X:1850045:1852730:-1 11/11 None
GENEFINDER00000040402 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1850045:1852730:-1 11/11 None
T26C11.6 ENSEMBL cdna:known chromosome:CEL140:X:1849627:1852730:-1 gene:T26C11.6 11/11 A 
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:1850044-1853261(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox
Gene Symbol ceh-21
Ensembl T26C11.6
Entrez Gene 180504 Entrez gene
SwissProt Q22811 EMBL-EBI
WormBase CE29823 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 NP_508341 T26C11.6 [Caenorhabditis elegans] gb|AAC48216.2| C.elegans homeobox protein 21 [Caenorhabditis elegans] emb|CAD20808.1| CEH-21 protein [Caenorhabditis elegans] sp|Q22811|HM21_CAEEL Homeobox protein ceh-21 0.0
blast T28912 probable homeobox protein - Caenorhabditis elegans 0.0
blast NP_508341 T26C11.6 [Caenorhabditis elegans] gb|AAC48216.2| C.elegans homeobox protein 21 [Caenorhabditis elegans] emb|CAD20808.1| CEH-21 protein [Caenorhabditis elegans] sp|Q22811|HM21_CAEEL Homeobox protein ceh-21 9.0E-78
blast AAB86814 CEH-21 [Caenorhabditis elegans] 9.0E-78
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.99999974737875E-6
Pfam IPR001356 EMBL-EBI Homeobox 1.8E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 3.6E-55
Pfam IPR001356 EMBL-EBI Homeobox 1.8E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 2.2E-34
Sequence
Target Sequence 
>C. ELEGANS:190942_AT
caaagagcgctgcattccacagactgcacttgccgagaaaattcttgccagaagtcaagg
aacactgtcggatttgcttcgaatgccaaagccgtggagtgtcatgaagaatggtcgtgc
cacgtttcagcgtatgtcaaactggcttggtttggatccagacgttcgccgtgcgttgtg
ctttttgccgaaagaagatgttgcgcgaattaccgggttggatgagccaactccagcaaa
gcgtaaaaaaaccgtaaaagtcattcgcctcacgttcacggagacccagctcaagtccct
tcagaaatcctttcaacaaaatcatcgtccaactcgtgaaatgcgtcaaaagttgagtgc
taccttggagctcgacttctccacagtcggcaactttttcatgaactcgcgccgtcgtct
tcgcattgaccagcaaatcagtcgctcgtctcgctcgacaggaaacggagccgacaccga
ggatgagctcgacgaggaagacgttgtcgttgagaatgtcatcgccgacgcgacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAAGAGCGCTGCATTCCACAGACT 518 191 1191 Antisense
TCGTGCCACGTTTCAGCGTATGTCA 545 605 1305 Antisense
GCTTGGTTTGGATCCAGACGTTCGC 188 293 1335 Antisense
GATGTTGCGCGAATTACCGGGTTGG 267 409 1387 Antisense
CGTAAAAGTCATTCGCCTCACGTTC 577 241 1443 Antisense
AGCTCAAGTCCCTTCAGAAATCCTT 258 79 1478 Antisense
GTTGAGTGCTACCTTGGAGCTCGAC 656 437 1542 Antisense
CTCCACAGTCGGCAACTTTTTCATG 124 235 1569 Antisense
TGACCAGCAAATCAGTCGCTCGTCT 108 571 1617 Antisense
CTCGTCTCGCTCGACAGGAAACGGA 363 233 1635 Antisense
TGAGAATGTCATCGCCGACGCGACC 259 569 1701 Antisense
Sequence Source Affymetrix Proprietary Database