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[189194_at] homeobox domain

Description F27E5.3 /REP_DB=WormBase Gene ID /WP=CE01564 /TR=Q09552 /GB=CAA88465.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=homeobox domain
Cluster 6grp_total > 99      4grp_total > 19      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 88.7
(-1.5)
P 		72.4
(-2.1)
A 		50.9
(-3)
A 		199.9
(3)
P 		149
B 78
(-0.3)
A 		106.7
(3)
M 		95.2
(1.7)
A 		53.8
(-3)
A 		53
C 78.1
(-2)
P 		108.5
(-0.3)
A 		60.2
(-3)
P 		168.6
(3)
P 		108
avr 81.6
(-1.9) 		95.9
(-0.7) 		68.8
(-3) 		140.8
(3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 161
1 2 3 4 5 6 range
A 88.2
(-0.9)
A 		33
(-3)
A 		71.9
(-1.5)
A 		51.8
(-2.3)
A 		190.9
(3)
P 		157.4
(1.7)
P 		158
B 68.8
(-2.2)
A 		76.1
(-1.8)
A 		56.8
(-3)
A 		77.6
(-1.7)
P 		139
(2.3)
P 		150.6
(3)
P 		94
C 40.2
(-3)
A 		89.1
(-1.1)
P 		64.1
(-2.1)
M 		48.9
(-2.7)
A 		137.7
(0.8)
P 		194.2
(3)
P 		154
avr 65.7
(-2.7) 		66.1
(-2.6) 		64.3
(-2.7) 		59.4
(-3) 		155.9
(2.4) 		167.4
(3) 		108
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 32.3
(3)
P 		15.7
(-2.2)
A 		13.3
(-3)
A 		29.3
(2.1)
P 		19
B 24.9
(2.4)
A 		26.3
(3)
M 		22.1
(1.3)
A 		11.5
(-3)
A 		15
C 25.9
(-0.1)
P 		31.2
(3)
A 		21
(-3)
P 		28.4
(1.4)
P 		10
avr 27.7
(3) 		24.4
(0.8) 		18.8
(-3) 		23.1
(-0.1) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 16.3
(-2.4)
A 		11.7
(-3)
A 		15.7
(-2.5)
A 		13.1
(-2.8)
A 		57.6
(3)
P 		38.3
(0.5)
P 		46
B 23.9
(-1.6)
A 		25.3
(-1.4)
A 		13.8
(-3)
A 		20.6
(-2)
P 		56.5
(3)
P 		56.1
(2.9)
P 		43
C 14.9
(-2.4)
A 		27.2
(-1.1)
P 		16.3
(-2.3)
M 		9.8
(-3)
A 		44.6
(0.8)
P 		65
(3)
P 		55
avr 18.4
(-2.4) 		21.4
(-1.9) 		15.3
(-2.9) 		14.5
(-3) 		52.9
(3) 		53.1
(3) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189194_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3911
Sequence Type Exemplar sequence
Representative Public ID F27E5.3 NCBI
Target Description F27E5.3 /REP_DB=WormBase Gene ID /WP=CE01564 /TR=Q09552 /GB=CAA88465.1 /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_063787(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063787 NCBI Caenorhabditis elegans F27E5.3 (F27E5.3) mRNA, complete cds. 11/11 None
SNAP00000023301 ENSEMBL cdna:SNAP chromosome:CEL140:II:10141368:10144103:-1 11/11 None
GENEFINDER00000023307 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10141368:10144103:-1 11/11 None
F27E5.3 ENSEMBL cdna:known chromosome:CEL140:II:10141368:10144103:-1 gene:F27E5.3 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:10141364-10144100(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox domain
Ensembl F27E5.3
Entrez Gene 185023 Entrez gene
SwissProt Q09552 EMBL-EBI
WormBase CE01564 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA88465 Hypothetical protein F27E5.3 [Caenorhabditis elegans] ref|NP_496188.1| F27E5.3 [Caenorhabditis elegans] 0.0
blast CAE57835 Hypothetical protein CBG00862 [Caenorhabditis briggsae] 1.0E-82
blast CAE57835 Hypothetical protein CBG00862 [Caenorhabditis briggsae] 1.0E-78
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496188.1 1 57-79
F27E5.3 1 57-79
SNAP00000023301 1 59-81
GENEFINDER00000023307 1 59-81
Sequence
Target Sequence 
>C. ELEGANS:189194_AT
aagctgtctccatctactgtgacaacatctggaccatcaactgttgatactactggttct
tctggtaattcaacggatccgaccacaagatcaaacacttcaaatgtaccatctggaact
tccgaagcctcaatcaccaacccaatccttcattctcctccatcaaagtttgataatatt
ccgtctccaccaaaagcattttccgatgatcttcgaaaatccccagatgatgatgtgaaa
caaaatccacaatatggcatggatatcgttagtcccgttcaattggttaaatcgtctgat
aaaggatctgatggtcagaaagaagaaagaaaagatggagcaggtggacgtggagaatgg
aaatattactatgcaagtggatcagatgggaagatcggaaaagctttgagcacaactact
aagtcttccaccagtcaccgtcgttctactcgttcttggctctttgattcaaccggctca
aatcgtcttgaagccgctatcgttggatccgctccaaaaaccaactcaactgtctccagc
tcgattctcaaaacggactcgtctcactacaaaactgcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCTGTCTCCATCTACTGTGACAA 383 149 865 Antisense
TGGAACTTCCGAAGCCTCAATCACC 427 547 978 Antisense
TTCATTCTCCTCCATCAAAGTTTGA 299 689 1013 Antisense
TTGATAATATTCCGTCTCCACCAAA 196 707 1034 Antisense
GATATCGTTAGTCCCGTTCAATTGG 465 425 1126 Antisense
GAGCACAACTACTAAGTCTTCCACC 29 391 1272 Antisense
TTGGCTCTTTGATTCAACCGGCTCA 613 705 1320 Antisense
CAAATCGTCTTGAAGCCGCTATCGT 30 193 1343 Antisense
CAAAAACCAACTCAACTGTCTCCAG 203 191 1379 Antisense
CCAGCTCGATTCTCAAAACGGACTC 100 271 1400 Antisense
GACTCGTCTCACTACAAAACTGCAT 89 375 1420 Antisense
Sequence Source Affymetrix Proprietary Database