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[173826_s_at] Homeobox domain

Description C41917 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C37E2.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C41917 /WB_GENE_ID=C37E2.4 /WP=CE08623 /CHR=X /FEA=Genomic Cluster /GEN=ceh-36 /DEF=Homeobox domain; C.elegans cDNA clone yk282g1 : 5prime end, single read.
Cluster 6grp_total > 45      4grp_total > 46      6grp_cgc > 05      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 153
1 2 3 4 range
A 146.9
(3)
A 		80.4
(-1.8)
A 		96.3
(-0.6)
A 		63
(-3)
A 		84
B 169.3
(3)
P 		94.2
(-0.2)
A 		28.7
(-3)
A 		137
(1.6)
A 		141
C 132.7
(3)
A 		73.7
(-0.1)
A 		56.6
(-0.9)
A 		16.8
(-3)
A 		116
avr 149.6
(3) 		82.8
(-1.5) 		60.5
(-3) 		72.3
(-2.2) 		89

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 106.4
(1.5)
A 		98.8
(0.5)
A 		118.2
(3)
A 		80.8
(-1.8)
A 		71.8
(-3)
A 		72.7
(-2.9)
A 		46
B 121.4
(3)
P 		90.3
(1.1)
A 		49.1
(-1.4)
A 		23.7
(-3)
A 		52.9
(-1.2)
A 		112.6
(2.5)
A 		98
C 98
(2.3)
A 		94.7
(2.1)
A 		79.4
(1.2)
A 		13
(-3)
A 		86.3
(1.6)
A 		109
(3)
A 		96
avr 108.6
(3) 		94.6
(1.8) 		82.2
(0.7) 		39.2
(-3) 		70.3
(-0.3) 		98.1
(2.1) 		69
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 53.5
(3)
A 		17.5
(-1.9)
A 		25.2
(-0.8)
A 		9.2
(-3)
A 		44
B 54
(3)
P 		23.3
(-0.9)
A 		6.6
(-3)
A 		29.2
(-0.1)
A 		47
C 43.9
(3)
A 		21.2
(-0.3)
A 		19.7
(-0.5)
A 		2.8
(-3)
A 		41
avr 50.5
(3) 		20.7
(-1.9) 		17.2
(-2.4) 		13.7
(-3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 19.6
(-2.3)
A 		35.2
(3)
A 		25.7
(-0.3)
A 		20.5
(-2)
A 		21.7
(-1.6)
A 		17.7
(-3)
A 		18
B 42.2
(3)
P 		30.1
(1)
A 		11.9
(-2.1)
A 		6.3
(-3)
A 		21.5
(-0.5)
A 		42
(3)
A 		36
C 36.3
(3)
A 		28.9
(1.7)
A 		20.2
(0.1)
A 		2.6
(-3)
A 		27.9
(1.5)
A 		36.5
(3)
A 		34
avr 32.7
(3) 		31.4
(2.7) 		19.3
(-0.5) 		9.8
(-3) 		23.7
(0.6) 		32.1
(2.8) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173826_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26039
Sequence Type Exemplar sequence
Representative Public ID C41917 NCBI
Target Description C41917 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C37E2.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C41917 /WB_GENE_ID=C37E2.4 /WP=CE08623 /CHR=X /FEA=Genomic Cluster /GEN=ceh-36 /DEF=Homeobox domain; C.elegans cDNA clone yk282g1 : 5prime 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_077964(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077964 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-36) (ceh-36) mRNA, complete cds. 11/11 None
SNAP00000011523 ENSEMBL cdna:SNAP chromosome:CEL140:X:14183369:14185455:-1 11/11 None
GENEFINDER00000011528 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14183369:14185455:-1 11/11 None
C37E2.4 ENSEMBL cdna:known chromosome:CEL140:X:14183369:14185517:-1 gene:C37E2.4 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:14183214-14185456(-) 100.0 100.0
Public Domain and Genome References
Gene Title Homeobox domain
Gene Symbol ceh-36
Ensembl C37E2.4
Entrez Gene 181529 Entrez gene
SwissProt Q93352 EMBL-EBI
WormBase CE08623 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 CAB02821 Hypothetical protein C37E2.4 [Caenorhabditis elegans] ref|NP_510365.1| C.Elegans Homeobox family member (ceh-36) [Caenorhabditis elegans] pir||T19809 hypothetical protein C37E2.4 - Caenorhabditis elegans 1.0E-62
blast Q93352 Homeobox protein ceh-36 2.0E-59
blast CAE69935 Hypothetical protein CBG16311 [Caenorhabditis briggsae] 5.0E-35
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999993653105E-20
Pfam IPR001356 EMBL-EBI Homeobox 1.7E-22
Sequence
Target Sequence 
>C. ELEGANS:173826_S_AT
gatggagtccatccgggaagcacttcatcaagatcatccaatggttctccacacaacgaa
tcaaagcctgatactaaatcactaggaattcacataccaggcacaccggaattcaatgca
cacagtgctgccaaatatgaggcaaactcagcagtcttgagtcaactgcaacagcagcaa
cagcagcaattgcaacagccaaaaagtgaactggaggactcgaaaccacttgcagatacc
aaatacgattccactcaatcacttcttcctcaggctcaagctgcagcatatgcatcctac
gcaactactgctccttacccgtacaactacaacagctacttcccatcaaacttttactac
caacaatatggaagcaacgattacaccccaaatattactgcctact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGGAGTCCATCCGGGAAGCACTT 548 407 371 Antisense
GGAAGCACTTCATCAAGATCATCCA 524 531 386 Antisense
AGATCATCCAATGGTTCTCCACACA 132 67 401 Antisense
AGGAATTCACATACCAGGCACACCG 274 55 454 Antisense
GGCACACCGGAATTCAATGCACACA 448 535 470 Antisense
GGACTCGAAACCACTTGCAGATACC 174 525 586 Antisense
ATACGATTCCACTCAATCACTTCTT 617 23 613 Antisense
GGCTCAAGCTGCAGCATATGCATCC 340 537 643 Antisense
ATATGCATCCTACGCAACTACTGCT 437 19 658 Antisense
CTCCTTACCCGTACAACTACAACAG 191 231 681 Antisense
TACACCCCAAATATTACTGCCTACT 594 641 752 Antisense
Sequence Source Affymetrix Proprietary Database