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[191844_at] Homeobox domain

Description C34C6.8 /REP_DB=WormBase Gene ID /WP=CE08568 /GEN=ceh-7 /TR=SW:P20270 /GB=CAA91264.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Homeobox domain
Cluster 6grp_total > 10      4grp_total > 08      6grp_cgc > 53      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 1.8
(-3)
A 		4.4
(-2.8)
A 		22.8
(-1.2)
A 		71.5
(3)
A 		70
B 0.8
(-1.8)
A 		0.4
(-3)
A 		2.4
(3)
A 		1.4
(-0)
A 		2
C 1.5
(-1.5)
A 		0.5
(-3)
A 		0.9
(-2.4)
A 		4.4
(3)
A 		4
avr 1.4
(-3) 		1.8
(-2.9) 		8.7
(-1.2) 		25.8
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 1
(-2.1)
A 		1.1
(-1.8)
A 		1.6
(-0.3)
A 		0.7
(-3)
A 		2.6
(2.7)
A 		2.7
(3)
A 		2
B 1.1
(-2.1)
A 		0.6
(-2.9)
A 		4.5
(3)
A 		2
(-0.8)
A 		0.5
(-3)
A 		0.7
(-2.7)
A 		4
C 0.9
(-3)
A 		27.2
(3)
A 		3.1
(-2.5)
A 		2.7
(-2.6)
A 		0.9
(-3)
A 		1.5
(-2.9)
A 		26
avr 1
(-3) 		9.6
(3) 		3.1
(-1.5) 		1.8
(-2.4) 		1.3
(-2.8) 		1.6
(-2.6) 		9
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 0.7
(-3)
A 		1
(-2.8)
A 		6
(0.2)
A 		10.5
(3)
A 		10
B 0.2
(-1.8)
A 		0.1
(-3)
A 		0.6
(3)
A 		0.3
(-0.6)
A 		1
C 0.5
(1)
A 		0.1
(-3)
A 		0.3
(-1)
A 		0.7
(3)
A 		1
avr 0.5
(-2.8) 		0.4
(-3) 		2.3
(0.4) 		3.8
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 0.2
(-3)
A 		0.4
(-1)
A 		0.3
(-2)
A 		0.2
(-3)
A 		0.8
(3)
A 		0.6
(1)
A 		1
B 0.4
(-1.7)
A 		0.2
(-3)
A 		1.1
(3)
A 		0.5
(-1)
A 		0.2
(-3)
A 		0.3
(-2.3)
A 		1
C 0.3
(-3)
A 		8.3
(3)
A 		0.8
(-2.6)
A 		0.5
(-2.9)
A 		0.3
(-3)
A 		0.5
(-2.9)
A 		8
avr 0.3
(-3) 		3
(3) 		0.7
(-2.1) 		0.4
(-2.8) 		0.4
(-2.8) 		0.5
(-2.6) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191844_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3961
Sequence Type Exemplar sequence
Representative Public ID C34C6.8 NCBI
Target Description C34C6.8 /REP_DB=WormBase Gene ID /WP=CE08568 /GEN=ceh-7 /TR=SW:P20270 /GB=CAA91264.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Homeobox domain
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_063447(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063447 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-7) (ceh-7) mRNA, complete cds. 11/11 None
SNAP00000033106 ENSEMBL cdna:SNAP chromosome:CEL140:II:8703489:8703752:-1 11/11 None
C34C6.8 ENSEMBL cdna:known chromosome:CEL140:II:8703291:8703752:-1 gene:C34C6.8 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
chrII:8703287-8703749(-) 100.0 100.0
Public Domain and Genome References
Gene Title Homeobox domain
Gene Symbol ceh-7
Ensembl C34C6.8
Entrez Gene 174391 Entrez gene
SwissProt P20270 EMBL-EBI
WormBase CE08568 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 CAA91264 Hypothetical protein C34C6.8 [Caenorhabditis elegans] ref|NP_495848.1| C.Elegans Homeobox family member (ceh-7) [Caenorhabditis elegans] gb|AAC36745.1| homeodomain protein CEH-7 [Caenorhabditis elegans] sp|P20270|HM07_CAEEL Homeobox protein ceh-7 1.0E-41
blast CAA91264 Hypothetical protein C34C6.8 [Caenorhabditis elegans] ref|NP_495848.1| C.Elegans Homeobox family member (ceh-7) [Caenorhabditis elegans] gb|AAC36745.1| homeodomain protein CEH-7 [Caenorhabditis elegans] sp|P20270|HM07_CAEEL Homeobox protein ceh-7 9.0E-33
blast CAE65945 Hypothetical protein CBG11122 [Caenorhabditis briggsae] 1.0E-29
blast CAE65945 Hypothetical protein CBG11122 [Caenorhabditis briggsae] 4.0E-21
blast CAE68465 Hypothetical protein CBG14259 [Caenorhabditis briggsae] 3.0E-12
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999999200839E-12
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 5.00000001813747E-16
Pfam IPR001356 EMBL-EBI Homeobox 1.5E-26
Pfam IPR001356 EMBL-EBI Homeobox 9.3E-14
Sequence
Target Sequence 
>C. ELEGANS:191844_AT
atgaaacacgaaatggtctttacattcttactgatgatggttagaccagaagcttcaacc
tccagaattccacgtagaagaaccacatttacagtggaacaactatatttactcgaaatg
tattttgcacaaagtcagtatgttggatgtgatgaaagggaaagattggcaaggattttg
agtctaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAAACACGAAATGGTCTTTACAT 523 29 13 Antisense
ATGGTCTTTACATTCTTACTGATGA 482 51 25 Antisense
ATTCTTACTGATGATGGTTAGACCA 539 3 36 Antisense
GTTAGACCAGAAGCTTCAACCTCCA 546 443 52 Antisense
TCAACCTCCAGAATTCCACGTAGAA 480 631 67 Antisense
GAATTCCACGTAGAAGAACCACATT 463 321 77 Antisense
GAACCACATTTACAGTGGAACAACT 384 339 92 Antisense
GTGGAACAACTATATTTACTCGAAA 670 489 106 Antisense
TTTACTCGAAATGTATTTTGCACAA 116 673 120 Antisense
TTTTGCACAAAGTCAGTATGTTGGA 527 669 135 Antisense
GATTGGCAAGGATTTTGAGTCTAGA 268 435 176 Antisense
Sequence Source Affymetrix Proprietary Database