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[194028_s_at] Homeobox domain, Pou domain - N-terminal to homeobox domain

Description K02B12.1 /REP_DB=WormBase Gene ID /WP=CE28045 /GEN=ceh-6 /TR=SW:P20268 /GB=CAB00031.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Homeobox domain, Pou domain - N-terminal to homeobox domain
Cluster 6grp_highest_10_10 > 51      6grp_high1_10_10 > 25      4grp_highest_8_8 > 63      4grp_high_8_8 > 19      6grp_highest_nonorm > 90      6grp_total > 15      4grp_total > 28      6grp_highest_sub > De      6grp_cgc > 41      6grp_high1_sub > 01_02      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 119
1 2 3 4 range
A 195.1
(3)
P 		178.9
(-0.9)
P 		170.3
(-3)
P 		171.1
(-2.8)
P 		25
B 199.8
(3)
P 		192.3
(2.4)
P 		129.6
(-3)
P 		196.1
(2.7)
P 		70
C 182.5
(-0.8)
P 		205.2
(0.5)
P 		143.8
(-3)
P 		248.5
(3)
P 		105
avr 192.5
(1.7) 		192.1
(1.6) 		147.9
(-3) 		205.2
(3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 166
1 2 3 4 5 6 range
A 194.4
(2.1)
P 		207
(3)
P 		136.7
(-1.8)
P 		139.4
(-1.6)
P 		122.1
(-2.8)
P 		119
(-3)
P 		88
B 202.3
(1.9)
P 		223.7
(3)
P 		104.4
(-3)
P 		148.6
(-0.8)
P 		138.9
(-1.3)
P 		119.2
(-2.3)
P 		119
C 258.2
(3)
P 		223
(1.7)
P 		119.6
(-2)
P 		156.3
(-0.7)
P 		112.9
(-2.3)
P 		92.2
(-3)
P 		166
avr 218.3
(3) 		217.9
(3) 		120.2
(-2.4) 		148.1
(-0.9) 		124.6
(-2.2) 		110.1
(-3) 		108
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 71
(3)
P 		38.8
(-1.2)
P 		44.5
(-0.5)
P 		25
(-3)
P 		46
B 63.7
(3)
P 		47.5
(0.1)
P 		30
(-3)
P 		41.8
(-0.9)
P 		34
C 60.4
(3)
P 		59
(2.5)
P 		50.1
(-0.3)
P 		41.9
(-3)
P 		19
avr 65
(3) 		48.4
(-0.5) 		41.5
(-1.9) 		36.2
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 35.8
(-2.1)
P 		73.6
(3)
P 		29.8
(-2.9)
P 		35.4
(-2.1)
P 		36.8
(-2)
P 		29
(-3)
P 		45
B 70.4
(2.5)
P 		74.5
(3)
P 		25.4
(-3)
P 		39.4
(-1.3)
P 		56.4
(0.8)
P 		44.4
(-0.7)
P 		49
C 95.7
(3)
P 		68
(0.5)
P 		30.4
(-3)
P 		31.4
(-2.9)
P 		36.5
(-2.4)
P 		30.9
(-3)
P 		65
avr 67.3
(2.4) 		72
(3) 		28.5
(-3) 		35.4
(-2) 		43.2
(-1) 		34.8
(-2.1) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194028_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1313
Sequence Type Exemplar sequence
Representative Public ID K02B12.1 NCBI
Target Description K02B12.1 /REP_DB=WormBase Gene ID /WP=CE28045 /GEN=ceh-6 /TR=SW:P20268 /GB=CAB00031.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Homeobox domain, Pou domain - N-terminal to 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_059903(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059903 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-6) (ceh-6) mRNA, complete cds. 11/11 None
SNAP00000001140 ENSEMBL cdna:SNAP chromosome:CEL140:I:8506545:8508221:-1 11/11 None
GENEFINDER00000001160 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8506545:8510385:-1 11/11 None
K02B12.1 ENSEMBL cdna:known chromosome:CEL140:I:8506239:8510468:-1 gene:K02B12.1 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
chrI:8506475-8508152(-) 100.0 100.0
Public Domain and Genome References
Gene Title Homeobox domain, Pou domain - N-terminal to homeobox domain
Gene Symbol ceh-6
Ensembl K02B12.1
Entrez Gene 172640 Entrez gene
SwissProt P20268 EMBL-EBI
WormBase CE28045 Wormbase
Functional Annotations
Ortholog
ID Title Organism
HG-U133_PLUS_2:208563_X_AT POU domain, class 3, transcription factor 3 hs
HG-U133A:208563_X_AT POU domain, class 3, transcription factor 3 hs
HG-FOCUS:208563_X_AT POU domain, class 3, transcription factor 3 hs
HG-U133A_2:208563_X_AT POU domain, class 3, transcription factor 3 hs
U133_X3P:G5453935_3P_X_AT POU domain, class 3, transcription factor 3 hs
U133_X3P:G5453935_3P_AT POU domain, class 3, transcription factor 3 hs
HU35KSUBC:RC_N52158_AT POU domain, class 3, transcription factor 3 hs
U133_X3P:HS.47448.0.A1_3P_AT POU domain, class 3, transcription factor 3 hs
HG-U133_PLUS_2:228780_AT POU domain, class 3, transcription factor 3 hs
HG-U133B:228780_AT POU domain, class 3, transcription factor 3 hs
HG-U95B:46840_AT POU domain, class 3, transcription factor 3 hs
HG-U95E:67864_AT POU domain, class 3, transcription factor 3 hs
MOUSE430_2:1422331_AT POU domain, class 3, transcription factor 3 mm
MOE430A:1422331_AT POU domain, class 3, transcription factor 3 mm
MOUSE430A_2:1422331_AT POU domain, class 3, transcription factor 3 mm
MU11KSUBB:MSA.1093.0_AT POU domain, class 3, transcription factor 3 mm
MG-U74AV2:101305_AT POU domain, class 3, transcription factor 3 mm
MG-U74BV2:163586_AT POU domain, class 3, transcription factor 3 (Pou3f3), mRNA mm
MOE430B:1435197_AT POU domain, class 3, transcription factor 3 (Pou3f3), mRNA mm
MOUSE430_2:1435197_AT POU domain, class 3, transcription factor 3 (Pou3f3), mRNA mm
RN-U34:AJ001641_AT POU domain, class 3, transcription factor 3 rn
RG-U34A:AJ001641_AT POU domain, class 3, transcription factor 3 rn
RAE230A:1371043_A_AT POU domain, class 3, transcription factor 3 rn
RAT230_2:1371043_A_AT POU domain, class 3, transcription factor 3 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
5634 nucleus inferred from direct assay QuickGO AmiGO
5737 cytoplasm 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 CAB00031 Hypothetical protein K02B12.1 [Caenorhabditis elegans] ref|NP_492304.1| C.Elegans Homeobox family member (ceh-6) [Caenorhabditis elegans] gb|AAG10298.1| POU family III homeodomain protein CEH-6 [Caenorhabditis elegans] sp|P20268|HM06_CAEEL Homeobox protein ceh-6 0.0
blast T23218 hypothetical protein K02B12.1 - Caenorhabditis elegans 0.0
blast T23218 hypothetical protein K02B12.1 - Caenorhabditis elegans 1.0E-180
blast CAB00031 Hypothetical protein K02B12.1 [Caenorhabditis elegans] ref|NP_492304.1| C.Elegans Homeobox family member (ceh-6) [Caenorhabditis elegans] gb|AAG10298.1| POU family III homeodomain protein CEH-6 [Caenorhabditis elegans] sp|P20268|HM06_CAEEL Homeobox protein ceh-6 1.0E-180
blast CAE67117 Hypothetical protein CBG12531 [Caenorhabditis briggsae] 1.0E-160
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 7.00000015651189E-23
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999999963992E-23
Pfam IPR001356 EMBL-EBI Homeobox 2.3E-21
Pfam IPR000327 EMBL-EBI POU domain 4.3E-53
Pfam IPR001356 EMBL-EBI Homeobox 2.3E-21
Pfam IPR000327 EMBL-EBI POU domain 4.3E-53
Sequence
Target Sequence 
>C. ELEGANS:194028_S_AT
agctggtggaccacatcagccattatctgatatttccgatgatagtgaacagacgtgtcc
agatgatttggaaggatttgcaaaacaatttaagcagagaagaatcaaattaggatacac
acaagcagatgtaggtgtggctctcggaacactctacggaaatatattttcccagacaac
aatttgtcgttttgaagcgcttcaactctctttcaagaatatgtgcaaactaaagccact
tctattcaaatggctcgaggaagctgattcaacgactggctcgcccaattctacatttga
aaaaatgacagggcaagctggaagaaagagaaagaagagaacaagcattgaggtcaatgt
aaaatctcgtcttgaattccatttccagtcgaatcagaagccaaatgcacaagagattac
acaagttgccatggagttgcagcttgagaaagaggttgtccgtgtctggttctgcaatcg
tcgtcaaaaagagaagcgaatagctccaaatcaatacgatgctccacatccaatggcttt
aaacaatggatatccaatgactgctgaccttttcccatatcaagccgtcgtcaatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTGGTGGACCACATCAGCCATTA 284 81 363 Antisense
TAGGTGTGGCTCTCGGAACACTCTA 102 635 494 Antisense
TTGAAGCGCTTCAACTCTCTTTCAA 75 705 554 Antisense
GCAAACTAAAGCCACTTCTATTCAA 91 317 587 Antisense
GAAGCTGATTCAACGACTGGCTCGC 293 343 622 Antisense
ATCTCGTCTTGAATTCCATTTCCAG 398 33 726 Antisense
GTTGCCATGGAGTTGCAGCTTGAGA 158 441 787 Antisense
GAAAGAGGTTGTCCGTGTCTGGTTC 605 359 810 Antisense
GATGCTCCACATCCAATGGCTTTAA 539 413 880 Antisense
GGATATCCAATGACTGCTGACCTTT 683 507 910 Antisense
TCCCATATCAAGCCGTCGTCAATCA 219 599 935 Antisense
Sequence Source Affymetrix Proprietary Database