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[186162_at]

Description Y38H6C.22 /REP_DB=WormBase Gene ID /WP=CE19116 /TR=Q9XX40 /GB=CAA20999.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 53      4grp_total > 36      6grp_cgc > 90      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 12.8
(-1.9)
A 		44.7
(3)
A 		7.8
(-2.6)
A 		5.5
(-3)
A 		39
B 19
(3)
A 		18
(2.6)
A 		2.8
(-3)
A 		7.4
(-1.3)
A 		16
C 16.2
(-0.6)
A 		7.8
(-2.1)
A 		2.5
(-3)
A 		36.7
(3)
A 		34
avr 16
(0.6) 		23.5
(3) 		4.4
(-3) 		16.5
(0.8) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 1.6
(-3)
A 		2.2
(-2.7)
A 		7.8
(-0.3)
A 		6.2
(-1)
A 		15.2
(3)
A 		2.4
(-2.6)
A 		14
B 6.4
(1.3)
A 		2.8
(-2)
A 		8.3
(3)
A 		3.2
(-1.6)
A 		4
(-0.9)
A 		1.7
(-3)
A 		7
C 2.3
(-2.1)
A 		4.1
(-0.6)
A 		8.6
(3)
A 		2.6
(-1.9)
A 		1.2
(-3)
A 		3.9
(-0.8)
A 		7
avr 3.4
(-2.2) 		3
(-2.7) 		8.2
(3) 		4
(-1.6) 		6.8
(1.5) 		2.7
(-3) 		6
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 4.7
(-0.4)
A 		9.7
(3)
A 		2
(-2.2)
A 		0.8
(-3)
A 		9
B 6.1
(3)
A 		4.5
(1.3)
A 		0.6
(-3)
A 		1.6
(-1.9)
A 		6
C 5.4
(2.1)
A 		2.2
(-1.5)
A 		0.9
(-3)
A 		6.2
(3)
A 		5
avr 5.4
(2.9) 		5.5
(3) 		1.2
(-3) 		2.9
(-0.6) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 0.3
(-3)
A 		0.8
(-2.3)
A 		1.7
(-1)
A 		1.6
(-1.2)
A 		4.6
(3)
A 		0.6
(-2.6)
A 		4
B 2.2
(3)
A 		0.9
(-1.9)
A 		2
(2.3)
A 		0.8
(-2.3)
A 		1.6
(0.8)
A 		0.6
(-3)
A 		2
C 0.8
(-1.7)
A 		1.2
(-0.3)
A 		2.2
(3)
A 		0.5
(-2.7)
A 		0.4
(-3)
A 		1.3
(0)
A 		2
avr 1.1
(-1.7) 		1
(-2.1) 		2
(2.1) 		1
(-2.1) 		2.2
(3) 		0.8
(-3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186162_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12613
Sequence Type Exemplar sequence
Representative Public ID Y38H6C.22 NCBI
Target Description Y38H6C.22 /REP_DB=WormBase Gene ID /WP=CE19116 /TR=Q9XX40 /GB=CAA20999.1 /SUBMIT=HINXTON /CHR=5 /FEA=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_075564(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075564 NCBI Caenorhabditis elegans AntiBacterial Factor related family member (abf-4) (abf-4) mRNA, complete cds. 11/11 None
SNAP00000041334 ENSEMBL cdna:SNAP chromosome:CEL140:V:20555996:20556421:-1 11/11 None
GENEFINDER00000041337 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20555996:20556421:-1 11/11 None
Y38H6C.22 ENSEMBL cdna:known chromosome:CEL140:V:20555996:20556421:-1 gene:Y38H6C.22 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
chrV:20555995-20556421(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol abf-4
Ensembl Y38H6C.22
Entrez Gene 189702 Entrez gene
SwissProt Q9XX40 EMBL-EBI
WormBase CE19116 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA20999 Hypothetical protein Y38H6C.22 [Caenorhabditis elegans] ref|NP_507965.1| AntiBacterial Factor related family member (abf-4) [Caenorhabditis elegans] 4.0E-62
blast CAE17995 Hypothetical protein Y38H6C.23 [Caenorhabditis elegans] ref|NP_001024226.1| Y38H6C.23 [Caenorhabditis elegans] 7.0E-37
blast CAB07627 Hypothetical protein F54B8.5 [Caenorhabditis elegans] ref|NP_506950.1| AntiBacterial Factor related family member (abf-3) [Caenorhabditis elegans] 3.0E-23
Sequence
Target Sequence 
>C. ELEGANS:186162_AT
tttgcaactgctttcttctaataattgttactttggtcatcagtaattgtgatggtatct
gtctgaatcatgaaggctggggaaacgtcgggtctgtcttcaccgacccgctttgcaatg
tttggtgtgaaattaaactttgcggtcccggtcagtgcatagaagatccgatgacaactg
cgccagctcgatgcgtttgcgagaagtgttatagagacaacagtggtaatgcagtttatc
caggagggaacaacgattaccagcaacaagctcaaatgaatcgtgaacggcaacttgata
gacagtataatagacaacttcggcaacaaaatcgtat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGCAACTGCTTTCTTCTAATAAT 687 665 17 Antisense
GGTATCTGTCTGAATCATGAAGGCT 170 505 70 Antisense
TGAAGGCTGGGGAAACGTCGGGTCT 61 551 87 Antisense
CCGACCCGCTTTGCAATGTTTGGTG 631 263 119 Antisense
TTAAACTTTGCGGTCCCGGTCAGTG 298 545 149 Antisense
GGTCCCGGTCAGTGCATAGAAGATC 633 499 160 Antisense
CGCCAGCTCGATGCGTTTGCGAGAA 699 257 197 Antisense
GGTAATGCAGTTTATCCAGGAGGGA 222 503 241 Antisense
GAACAACGATTACCAGCAACAAGCT 125 353 264 Antisense
GAATCGTGAACGGCAACTTGATAGA 703 327 294 Antisense
GACAACTTCGGCAACAAAATCGTAT 561 363 329 Antisense
Sequence Source Affymetrix Proprietary Database