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[193581_at] homeobox protein (otd subfamily)

Description F26C11.2 /REP_DB=WormBase Gene ID /WP=CE01560 /GEN=unc-4 /TR=SW:P29506 /GB=CAA87368.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=homeobox protein (otd subfamily)
Cluster 6grp_high1_10_10 > 22      4grp_high_8_8 > 36      6grp_total > 22      4grp_total > 44      6grp_cgc > 62      6grp_high1_sub > De      6grp_cgc_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 143
1 2 3 4 range
A 148.6
(-0.6)
P 		234.3
(3)
P 		133.8
(-1.2)
P 		91.3
(-3)
A 		143
B 191
(1.3)
P 		223.5
(3)
P 		107.7
(-3)
P 		119.5
(-2.4)
P 		116
C 182.8
(0.7)
P 		217.5
(3)
P 		125.8
(-3)
P 		173.4
(0.1)
P 		92
avr 174.1
(0) 		225.1
(3) 		122.4
(-3) 		128.1
(-2.7) 		103

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 151
1 2 3 4 5 6 range
A 203.5
(3)
P 		179.7
(1.9)
P 		108.9
(-1.2)
P 		136.6
(0)
P 		112.5
(-1)
P 		68.6
(-3)
P 		135
B 76.1
(-2.8)
P 		181.8
(3)
P 		147.9
(1.1)
P 		72.6
(-3)
P 		110
(-0.9)
P 		82.8
(-2.4)
P 		109
C 132.4
(0.7)
P 		134
(0.8)
P 		182.1
(3)
P 		88.1
(-1.3)
A 		67.5
(-2.3)
P 		52.2
(-3)
P 		130
avr 137.3
(1.3) 		165.2
(3) 		146.3
(1.8) 		99.1
(-1.1) 		96.7
(-1.2) 		67.9
(-3) 		97
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 54.1
(3)
P 		50.9
(2.5)
P 		35
(0.2)
P 		13.4
(-3)
A 		41
B 60.9
(3)
P 		55.2
(2)
P 		25
(-3)
P 		25.5
(-2.9)
P 		36
C 60.5
(2.6)
P 		62.5
(3)
P 		43.9
(-0.4)
P 		29.2
(-3)
P 		33
avr 58.5
(3) 		56.2
(2.6) 		34.6
(-1) 		22.7
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 37.5
(-0.4)
P 		63.9
(3)
P 		23.7
(-2.1)
P 		34.6
(-0.7)
P 		34
(-0.8)
P 		16.7
(-3)
P 		47
B 26.5
(-1.9)
P 		60.5
(3)
P 		35.9
(-0.6)
P 		19.2
(-3)
P 		44.7
(0.7)
P 		30.9
(-1.3)
P 		41
C 49.1
(3)
P 		40.9
(1.4)
P 		46.3
(2.5)
P 		17.7
(-3)
A 		21.9
(-2.2)
P 		17.5
(-3)
P 		32
avr 37.7
(-0.1) 		55.1
(3) 		35.3
(-0.6) 		23.8
(-2.6) 		33.5
(-0.9) 		21.7
(-3) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193581_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3965
Sequence Type Exemplar sequence
Representative Public ID F26C11.2 NCBI
Target Description F26C11.2 /REP_DB=WormBase Gene ID /WP=CE01560 /GEN=unc-4 /TR=SW:P29506 /GB=CAA87368.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=homeobox protein (otd 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_063737(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063737 NCBI Caenorhabditis elegans UNCoordinated family member (unc-4) (unc-4) mRNA, complete cds. 11/11 None
GENEFINDER00000037819 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9897771:9900168:-1 11/11 None
F26C11.2 ENSEMBL cdna:known chromosome:CEL140:II:9897771:9900168:-1 gene:F26C11.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000037812 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:9897767-9900165(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox protein (otd subfamily)
Gene Symbol unc-4
Ensembl F26C11.2
Entrez Gene 174544 Entrez gene
SwissProt P29506 EMBL-EBI
WormBase CE01560 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
45449 regulation of transcription inferred from sequence similarity 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 CAA87368 Hypothetical protein F26C11.2 [Caenorhabditis elegans] ref|NP_496138.1| UNCoordinated family member (unc-4) [Caenorhabditis elegans] sp|P29506|UNC4_CAEEL Homeobox protein unc-4 (Homeobox protein ceh-4) (Uncoordinated protein 4) 1.0E-142
blast CAA46108 unc-4 [Caenorhabditis elegans] prf||1806384A homeo domain protein 1.0E-102
blast CAE57943 Hypothetical protein CBG00998 [Caenorhabditis briggsae] 2.0E-96
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.00000001954148E-24
Pfam IPR001356 EMBL-EBI Homeobox 2.8E-32
Sequence
Target Sequence 
>C. ELEGANS:193581_AT
gaaaatctacatcatcccgggaacaatccacgtcaccggatgacgataacctgttgatga
acgaagacgatggaatcgccttagaagatgataatgacactggtgaatctgctgcaaaaa
gacgaaggactaggacgaacttttccggttggcaactggaagagctcgaatcagcattcg
aagcttctcactatccagacgttttcatgcgggaagcacttgcaatgagattagatttgc
tagaaagtcgagttcaggtatggttccaaaatcgtcgtgcaaaatggcgaaagcgagagc
aaaaccgaaatggttcgagtgagattaaaaaggatgatggagaacaaatggaaacaaaag
ctctaccaacatttccattctcaattgacagtattttggcagttagtagagtgcctcgag
gcaggcgaccaaatgcgaaatatcccagggttcaggcctgcaaaaacctatcaccattta
tgattcctttgtttccaatcactcagcctggtgggaatgtaattcgtgaaaagtctcccc
ct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAATCTACATCATCCCGGGAACA 271 353 155 Antisense
TCCCGGGAACAATCCACGTCACCGG 469 595 169 Antisense
ATGACACTGGTGAATCTGCTGCAAA 95 45 248 Antisense
AGCATTCGAAGCTTCTCACTATCCA 326 79 327 Antisense
CACTATCCAGACGTTTTCATGCGGG 645 197 343 Antisense
AAAAGCTCTACCAACATTTCCATTC 537 131 510 Antisense
TAGAGTGCCTCGAGGCAGGCGACCA 10 653 561 Antisense
AATATCCCAGGGTTCAGGCCTGCAA 347 173 593 Antisense
AGGCCTGCAAAAACCTATCACCATT 494 53 608 Antisense
TTTCCAATCACTCAGCCTGGTGGGA 524 667 646 Antisense
TGTAATTCGTGAAAAGTCTCCCCCT 681 545 672 Antisense
Sequence Source Affymetrix Proprietary Database