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[193833_s_at] homeobox protein (distal-less subfamily)

Description C28A5.4 /REP_DB=WormBase Gene ID /WP=CE05325 /GEN=ceh-43 /TR=SW:Q18273 /GB=CAA83601.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=homeobox protein (distal-less subfamily)
Cluster 6grp_total > 37      4grp_total > 29      6grp_cgc > 16      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 148.6
(3)
P 		124.7
(1.6)
A 		46.2
(-3)
A 		127.5
(1.8)
A 		102
B 156.6
(3)
P 		143.2
(2)
A 		79.5
(-3)
A 		112.1
(-0.5)
P 		77
C 114.8
(-1.3)
P 		116.4
(-1.1)
A 		97.6
(-3)
A 		158.3
(3)
P 		61
avr 140
(3) 		128.1
(1.9) 		74.4
(-3) 		132.6
(2.3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 222
1 2 3 4 5 6 range
A 192.9
(3)
P 		88.6
(-0.4)
P 		87.9
(-0.4)
P 		81.9
(-0.6)
A 		9.9
(-3)
A 		141.8
(1.3)
P 		183
B 129.9
(2.5)
P 		132.7
(2.7)
P 		87.9
(-0.5)
P 		70.8
(-1.7)
A 		53.2
(-3)
A 		137.3
(3)
P 		84
C 232
(3)
P 		102.4
(-0.8)
P 		103.8
(-0.7)
P 		58.5
(-2)
A 		25
(-3)
A 		120.4
(-0.2)
P 		207
avr 184.9
(3) 		107.9
(0) 		93.2
(-0.5) 		70.4
(-1.4) 		29.4
(-3) 		133.2
(1) 		156
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 54.1
(3)
P 		27.1
(-0.9)
A 		12.1
(-3)
A 		18.7
(-2.1)
A 		42
B 49.9
(3)
P 		35.4
(0.2)
A 		18.4
(-3)
A 		23.9
(-2)
P 		32
C 38
(3)
P 		33.5
(0.6)
A 		34
(0.9)
A 		26.7
(-3)
P 		11
avr 47.3
(3) 		32
(-0.6) 		21.5
(-3) 		23.1
(-2.6) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 35.6
(3)
P 		31.5
(2.2)
P 		19.1
(-0)
P 		20.8
(0.3)
A 		3
(-3)
A 		34.5
(2.8)
P 		33
B 45.2
(1.9)
P 		44.2
(1.7)
P 		21.3
(-2.5)
P 		18.7
(-3)
A 		21.6
(-2.5)
A 		51.2
(3)
P 		33
C 86
(3)
P 		31.2
(-1.2)
P 		26.4
(-1.6)
P 		11.8
(-2.7)
A 		8.1
(-3)
A 		40.3
(-0.5)
P 		78
avr 55.6
(3) 		35.6
(0.3) 		22.3
(-1.5) 		17.1
(-2.2) 		10.9
(-3) 		42
(1.2) 		45
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193833_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6507
Sequence Type Exemplar sequence
Representative Public ID C28A5.4 NCBI
Target Description C28A5.4 /REP_DB=WormBase Gene ID /WP=CE05325 /GEN=ceh-43 /TR=SW:Q18273 /GB=CAA83601.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=homeobox protein (distal-less subfamily)
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_065503(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065503 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-43) (ceh-43) mRNA, complete cds. 11/11 None
GENEFINDER00000011692 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4446811:4449909:-1 11/11 None
C28A5.4 ENSEMBL cdna:known chromosome:CEL140:III:4446607:4449909:-1 gene:C28A5.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000011690 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4446810-4449909(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox protein (distal-less subfamily)
Gene Symbol ceh-43
Ensembl C28A5.4
Entrez Gene 175581 Entrez gene
SwissProt Q18273 EMBL-EBI
WormBase CE05325 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.4173.1.S1_AT similar to Homeobox protein DLX-5 cfa
HU35KSUBD:RC_N24006_AT distal-less homeo box 5 hs
U133_X3P:HS.99348.0.S1_3P_S_AT distal-less homeo box 5 hs
HG-U133A_2:213707_S_AT distal-less homeo box 5 hs
HG-FOCUS:213707_S_AT distal-less homeo box 5 hs
HG-U133_PLUS_2:213707_S_AT distal-less homeo box 5 hs
HG-U133A:213707_S_AT distal-less homeo box 5 hs
HG-U95AV2:41087_AT distal-less homeo box 5 hs
MU11KSUBA:U67840_S_AT distal-less homeobox 5 mm
MG-U74AV2:92930_AT distal-less homeobox 5 mm
MOE430A:1449863_A_AT distal-less homeobox 5 mm
MOUSE430A_2:1449863_A_AT distal-less homeobox 5 mm
MOUSE430_2:1449863_A_AT distal-less homeobox 5 mm
RG-U34A:D31734_AT distal-less homeobox 5 rn
RG-U34A:D31734_G_AT distal-less homeobox 5 rn
RG-U34B:RC_AA998469_AT distal-less homeobox 5 rn
RAE230A:1387274_AT distal-less homeobox 5 rn
RAT230_2:1387274_AT distal-less homeobox 5 rn
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
3700 transcription factor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast S43577 C28A5.4 protein (clone C28A5) - Caenorhabditis elegans 1.0E-143
blast CAA83601 Hypothetical protein C28A5.4 [Caenorhabditis elegans] ref|NP_497904.1| C.Elegans Homeobox family member (ceh-43) [Caenorhabditis elegans] sp|Q18273|HM43_CAEEL Homeobox protein ceh-43 1.0E-137
blast S43577 C28A5.4 protein (clone C28A5) - Caenorhabditis elegans 1.0E-135
blast CAA83601 Hypothetical protein C28A5.4 [Caenorhabditis elegans] ref|NP_497904.1| C.Elegans Homeobox family member (ceh-43) [Caenorhabditis elegans] sp|Q18273|HM43_CAEEL Homeobox protein ceh-43 1.0E-135
blast CAC41972 putative transcription factor [Caenorhabditis elegans] 1.0E-134
blast CAC41972 putative transcription factor [Caenorhabditis elegans] 1.0E-132
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 5.00000022906852E-19
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 8.9999997143897E-22
Pfam IPR001356 EMBL-EBI Homeobox 4.6E-13
Pfam IPR001356 EMBL-EBI Homeobox 3.3E-6
Pfam IPR001356 EMBL-EBI Homeobox 8.3E-28
Sequence
Target Sequence 
>C. ELEGANS:193833_S_AT
tgaagaagcttttcccgagcacacaactacaaaaatcgtggaaggatgtgaggcgaagta
caacgtgaaaggaaagaaaatgaggaaaccacggacaatttacaactcatcacaactgca
aatgcttcagaaaaaattccaaaaaacacaatatctggcgcttccggatcgagcagcatt
ggcacatgaattgggattatcacaaactcaggtgaaaatctggttccaaaatcggcgttc
gaagcagaagaaacagaagggtggaagttcggatcatgcatcagatgaagaagatgatga
tacggaagagtcaaagcctgaaagtccaccgatgggagaatcggttatgattcaggagag
cagtgagccaagaacacttgtatctagttcaattaaaactgaaatgaaagaggaatatcc
accgatgacactcaacgagcaatatgcttctccttacctctacggatccgacttttcaac
gattctcccaccgtcacagggtttccccaacaatgcgctctacaatacggcaggcgctta
tcctagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAAGAAGCTTTTCCCGAGCACACA 396 575 237 Antisense
AACCACGGACAATTTACAACTCATC 525 147 323 Antisense
AAAAACACAATATCTGGCGCTTCCG 13 131 378 Antisense
CTTCCGGATCGAGCAGCATTGGCAC 484 219 397 Antisense
GGGTGGAAGTTCGGATCATGCATCA 609 495 495 Antisense
CAAAGCCTGAAAGTCCACCGATGGG 199 191 548 Antisense
GGAATATCCACCGATGACACTCAAC 433 533 648 Antisense
ACGAGCAATATGCTTCTCCTTACCT 357 93 671 Antisense
GGATCCGACTTTTCAACGATTCTCC 651 511 700 Antisense
CCAACAATGCGCTCTACAATACGGC 70 277 743 Antisense
CAATACGGCAGGCGCTTATCCTAGC 556 177 759 Antisense
Sequence Source Affymetrix Proprietary Database