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[189669_at] homeobox protein

Description C17H12.9 /REP_DB=WormBase Gene ID /WP=CE16869 /TR=O45080 /GB=AAC02587.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=homeobox protein
Cluster 6grp_highest_10_10 > 42      6grp_high1_10_10 > 13      4grp_highest_8_8 > 63      4grp_high_8_8 > 19      6grp_highest_nonorm > 70      6grp_total > 13      4grp_total > 28      6grp_highest_sub > 02      6grp_cgc > 32      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 254.4
(0.4)
P 		241.6
(-0.1)
P 		160.4
(-3)
P 		326.7
(3)
P 		166
B 258.4
(1.8)
P 		236.2
(0.8)
P 		147.8
(-3)
P 		287.2
(3)
P 		139
C 244.3
(1.1)
P 		280.5
(3)
P 		167.2
(-3)
P 		240.6
(0.9)
P 		113
avr 252.4
(1.5) 		252.8
(1.5) 		158.5
(-3) 		284.8
(3) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 177
1 2 3 4 5 6 range
A 322.3
(3)
P 		311.1
(2.5)
P 		253.2
(-0.1)
P 		247
(-0.4)
P 		227.5
(-1.3)
P 		190.6
(-3)
P 		132
B 306.6
(1.7)
P 		336.1
(3)
P 		266.2
(0)
P 		218.1
(-2)
P 		205.1
(-2.6)
P 		195.3
(-3)
P 		141
C 317.5
(2)
P 		347
(3)
P 		248.3
(-0.3)
P 		251.4
(-0.2)
P 		222.1
(-1.2)
P 		169.8
(-3)
P 		177
avr 315.5
(2.3) 		331.4
(3) 		255.9
(-0.1) 		238.8
(-0.8) 		218.2
(-1.6) 		185.2
(-3) 		146
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 92.6
(3)
P 		52.5
(-1.7)
P 		41.9
(-3)
P 		47.8
(-2.3)
P 		51
B 82.4
(3)
P 		58.3
(-0)
P 		34.3
(-3)
P 		61.2
(0.4)
P 		48
C 80.9
(3)
P 		80.6
(3)
P 		58.3
(-0.4)
P 		40.6
(-3)
P 		40
avr 85.3
(3) 		63.8
(-0.2) 		44.8
(-3) 		49.9
(-2.2) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 59.4
(-1.8)
P 		110.6
(3)
P 		55.2
(-2.2)
P 		62.6
(-1.5)
P 		68.7
(-0.9)
P 		46.4
(-3)
P 		64
B 106.7
(2.4)
P 		111.9
(3)
P 		64.6
(-2.2)
P 		57.8
(-3)
P 		83.3
(-0.2)
P 		72.8
(-1.3)
P 		54
C 117.7
(3)
P 		105.9
(1.9)
P 		63.2
(-1.9)
P 		50.6
(-3)
P 		71.9
(-1.1)
P 		56.8
(-2.4)
P 		67
avr 94.6
(1.3) 		109.5
(3) 		61
(-2.5) 		57
(-3) 		74.6
(-1) 		58.7
(-2.8) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189669_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8568
Sequence Type Exemplar sequence
Representative Public ID C17H12.9 NCBI
Target Description C17H12.9 /REP_DB=WormBase Gene ID /WP=CE16869 /TR=O45080 /GB=AAC02587.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=homeobox protein
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_068645(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068645 NCBI Caenorhabditis elegans C17H12.9 (C17H12.9) mRNA, complete cds. 11/11 None
SNAP00000015112 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6813219:6814440:1 10/11 None
GENEFINDER00000015119 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6812109:6815114:1 11/11 None
C17H12.9 ENSEMBL cdna:known chromosome:CEL140:IV:6812092:6815565:1 gene:C17H12.9 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
chrIV:6812114-6815120(+) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox protein
Gene Symbol ceh-48
Ensembl C17H12.9
Entrez Gene 182756 Entrez gene
SwissProt O45080 EMBL-EBI
WormBase CE16869 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1630376_AT onecut dm
DROSGENOME1:150982_AT onecut dm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
15986 ATP synthesis coupled proton transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
16469 proton-transporting two-sector ATPase complex 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
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
46933 hydrogen-transporting ATP synthase activity, rotational mechanism inferred from electronic annotation QuickGO AmiGO
46961 hydrogen-transporting ATPase activity, rotational mechanism inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC02587 Hypothetical protein C17H12.9 [Caenorhabditis elegans] ref|NP_501046.1| C17H12.9 [Caenorhabditis elegans] 0.0
blast AAC02587 Hypothetical protein C17H12.9 [Caenorhabditis elegans] ref|NP_501046.1| C17H12.9 [Caenorhabditis elegans] 1.0E-149
blast CAE61746 Hypothetical protein CBG05700 [Caenorhabditis briggsae] 1.0E-138
blast CAE61746 Hypothetical protein CBG05700 [Caenorhabditis briggsae] 1.0E-109
blast XP_624996 PREDICTED: similar to hepatocyte nuclear factor 6 [Apis mellifera] 1.0E-65
blast XP_624996 PREDICTED: similar to hepatocyte nuclear factor 6 [Apis mellifera] 2.0E-65
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 3.9999998989515E-4
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 7.00000018696301E-5
Pfam IPR001356 EMBL-EBI Homeobox 3.2E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 3.9E-53
Pfam IPR001356 EMBL-EBI Homeobox 3.2E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 3.9E-53
Sequence
Target Sequence 
>C. ELEGANS:189669_AT
ttatccgatctacttcgcaatccaaaaccatggtctaagttgaaaagtggccgagaaaca
ttcagacggatggctaagtggttggaggaacctgagtttcaaagaatgtctgcgttgaga
ttagctgcttgtaaacgaaaagaagagcatacaacgcccaattcaccacagatggttgtt
cctaaaaagacacgtttagtattctcagatattcaaagaagaacccttcaagcaatattc
cgagaaacaaaacgtccatctcgtgaaatgcaaattacaatttctcagcaattgaatctc
gatccaactacggttgctaatttcttcatgaatgctagaagacgcggacatgatttgaaa
caagaaacatcagaaagtgaagaaagatctgaagaaccaagtattcattttgaacattct
gcatcttcatcatccgcttcttcgagttcttcatcatcgatgcaattggataattatatt
tgtgatataaatacaatcaatatacttgaagagccatcgccagagccaagagaaattaaa
tattcaatgcagcttctcgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATCCGATCTACTTCGCAATCCAA 270 681 793 Antisense
GTCTGCGTTGAGATTAGCTGCTTGT 286 471 900 Antisense
GAAGAGCATACAACGCCCAATTCAC 260 339 934 Antisense
AACGCCCAATTCACCACAGATGGTT 67 147 945 Antisense
GACACGTTTAGTATTCTCAGATATT 203 367 981 Antisense
AGAAGAACCCTTCAAGCAATATTCC 6 73 1009 Antisense
ACAAAACGTCCATCTCGTGAAATGC 326 111 1039 Antisense
TTCTCAGCAATTGAATCTCGATCCA 537 691 1074 Antisense
AACTACGGTTGCTAATTTCTTCATG 653 139 1098 Antisense
TACTTGAAGAGCCATCGCCAGAGCC 378 645 1295 Antisense
AAATATTCAATGCAGCTTCTCGAAA 132 117 1330 Antisense
Sequence Source Affymetrix Proprietary Database