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[174236_at] homeobox protein (so subfamily)

Description C31340_rc /REP_DB=TREMBL Accession /GB=C31340 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk281d2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 17      4grp_highest_8_8 > 60      4grp_high_8_8 > 25      6grp_highest_nonorm > 50      6grp_total > 16      4grp_total > 39      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 768
1 2 3 4 range
A 922
(3)
P 		381.4
(-2.4)
P 		322.7
(-3)
P 		604.2
(-0.2)
P 		599
B 967.8
(3)
P 		376.3
(-1.6)
P 		199.8
(-3)
P 		412.5
(-1.3)
P 		768
C 833.7
(3)
P 		382.7
(-2.6)
P 		348.2
(-3)
P 		500.7
(-1.1)
P 		486
avr 907.8
(3) 		380.1
(-2.1) 		290.2
(-3) 		505.8
(-0.9) 		618

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 809
1 2 3 4 5 6 range
A 1031.8
(3)
P 		485.3
(-1.1)
P 		344.5
(-2.1)
P 		224.3
(-3)
P 		309
(-2.4)
P 		295.7
(-2.5)
P 		808
B 916.7
(3)
P 		595.4
(0.2)
P 		222.5
(-3)
P 		387.3
(-1.6)
P 		264.2
(-2.6)
P 		294.5
(-2.4)
P 		694
C 825.9
(3)
P 		636.6
(1)
P 		313.8
(-2.4)
P 		370.3
(-1.8)
P 		261
(-3)
P 		313.7
(-2.4)
P 		565
avr 924.8
(3) 		572.4
(-0.3) 		293.6
(-2.9) 		327.3
(-2.5) 		278.1
(-3) 		301.3
(-2.8) 		647
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 289
1 2 3 4 range
A 335.7
(3)
P 		82.8
(-3)
P 		84.4
(-3)
P 		88.4
(-2.9)
P 		253
B 308.6
(3)
P 		92.9
(-1.9)
P 		46.3
(-3)
P 		87.9
(-2)
P 		262
C 276
(3)
P 		110
(-2.2)
P 		121.3
(-1.8)
P 		84.4
(-3)
P 		192
avr 306.8
(3) 		95.2
(-2.7) 		84
(-3) 		86.9
(-2.9) 		223

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 265
1 2 3 4 5 6 range
A 190.2
(3)
P 		172.6
(2.2)
P 		75
(-2.2)
P 		56.9
(-3)
P 		93.2
(-1.4)
P 		72
(-2.3)
P 		133
B 319
(3)
P 		198.2
(0.3)
P 		54
(-3)
P 		102.6
(-1.9)
P 		107.3
(-1.8)
P 		109.8
(-1.7)
P 		265
C 306.1
(3)
P 		194.3
(0.1)
P 		79.9
(-2.9)
P 		74.5
(-3)
P 		84.5
(-2.7)
P 		105
(-2.2)
P 		232
avr 271.8
(3) 		188.4
(0.5) 		69.6
(-3) 		78
(-2.8) 		95
(-2.2) 		95.6
(-2.2) 		202
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174236_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21840
Sequence Type Exemplar sequence
Representative Public ID C31340 NCBI
Target Description C31340_rc /REP_DB=TREMBL Accession /GB=C31340 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk281d2 : 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_073557(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073557 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-32) (ceh-32) mRNA, complete cds. 11/11 A 
W05E10.3.2 ENSEMBL cdna:known chromosome:CEL140:V:11704350:11707989:-1 gene:W05E10.3 11/11 None
W05E10.3.1 ENSEMBL cdna:known chromosome:CEL140:V:11704350:11707990:-1 gene:W05E10.3 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
chrV:11704422-11704708(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox protein (so subfamily)
Gene Symbol ceh-32
Ensembl W05E10.3
Entrez Gene 179603 Entrez gene
SwissProt Q23175 EMBL-EBI
WormBase CE29364 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
5634 nucleus inferred from direct assay 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
3700 transcription factor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01249 Hypothetical protein W05E10.3 [Caenorhabditis elegans] ref|NP_505958.1| C.Elegans Homeobox family member (ceh-32) [Caenorhabditis elegans] gb|AAG49583.1| CEH-32 [Caenorhabditis elegans] sp|Q23175|HM32_CAEEL Homeobox protein ceh-32 0.0
blast T26192 hypothetical protein W05E10.3 - Caenorhabditis elegans 0.0
blast CAE75312 Hypothetical protein CBG23282 [Caenorhabditis briggsae] 1.0E-169
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999994947575E-5
Pfam IPR001356 EMBL-EBI Homeobox 4.4E-10
Sequence
Target Sequence 
>C. ELEGANS:174236_AT
ttcccatcttttcagtccaatgttcgtctcaaatccggtaccatattttcatacttagtt
gtacttttttgagcttttccttcttcacttcctcccgcatttgccactcactttgaacct
caaattctgatttcttctattcttttttgtccacaatcttcagatgattgctacaccgct
ttgatgcattccctctaaaaatagctttagcggcgtttgagcattcatctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCCATCTTTTCAGTCCAATGTTC 358 697 18 Antisense
GTCCAATGTTCGTCTCAAATCCGGT 379 477 32 Antisense
AATCCGGTACCATATTTTCATACTT 211 161 49 Antisense
TGTACTTTTTTGAGCTTTTCCTTCT 639 559 77 Antisense
TTTGCCACTCACTTTGAACCTCAAA 164 667 117 Antisense
TTTGAACCTCAAATTCTGATTTCTT 513 667 129 Antisense
TCTTCTATTCTTTTTTGTCCACAAT 118 617 150 Antisense
TTTTTGTCCACAATCTTCAGATGAT 284 675 161 Antisense
GATGATTGCTACACCGCTTTGATGC 686 409 180 Antisense
GCTTTGATGCATTCCCTCTAAAAAT 639 303 195 Antisense
TTAGCGGCGTTTGAGCATTCATCTG 509 681 224 Antisense
Sequence Source Affymetrix Proprietary Database