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[191422_at]

Description ZK287.8 /REP_DB=WormBase Gene ID /WP=CE06617 /GEN=her-1 /TR=SW:P34704 /GB=CAA94804.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=HER-1 protein
Cluster 6grp_total > 18      4grp_total > 36      6grp_cgc > 01      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 63.3
(1.4)
A 		76
(3)
A 		27.9
(-3)
A 		58.3
(0.8)
A 		48
B 51.5
(1.6)
A 		60.5
(3)
A 		36.8
(-0.7)
A 		21.8
(-3)
A 		39
C 41.9
(-1.4)
A 		32.2
(-3)
A 		40.3
(-1.6)
A 		67.5
(3)
P 		35
avr 52.2
(1.9) 		56.2
(3) 		35
(-3) 		49.2
(1) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 113.3
(3)
A 		34.2
(-3)
A 		45.8
(-2.1)
A 		61.3
(-0.9)
A 		51.5
(-1.7)
A 		43.6
(-2.3)
A 		79
B 50.2
(1.2)
A 		61.1
(3)
A 		32
(-1.8)
A 		41.9
(-0.2)
A 		35.4
(-1.2)
A 		24.7
(-3)
A 		36
C 72
(3)
A 		51.2
(-0.6)
A 		47.7
(-1.2)
A 		51.9
(-0.5)
A 		62.5
(1.4)
A 		37.3
(-3)
A 		35
avr 78.5
(3) 		48.8
(-1.1) 		41.8
(-2.1) 		51.7
(-0.7) 		49.8
(-1) 		35.2
(-3) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 23
(3)
A 		16.5
(0.5)
A 		7.3
(-3)
A 		8.5
(-2.5)
A 		16
B 16.4
(3)
A 		14.9
(2.2)
A 		8.5
(-1)
A 		4.6
(-3)
A 		12
C 13.9
(2.8)
A 		9.3
(-3)
A 		14.1
(3)
A 		11.4
(-0.4)
P 		5
avr 17.8
(3) 		13.6
(0.4) 		10
(-1.9) 		8.2
(-3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 20.9
(3)
A 		12.2
(-1.8)
A 		10
(-3)
A 		15.6
(0.1)
A 		15.5
(0)
A 		10.6
(-2.7)
A 		11
B 17.5
(1.7)
A 		20.3
(3)
A 		7.8
(-3)
A 		11.1
(-1.4)
A 		14.4
(0.2)
A 		9.2
(-2.3)
A 		13
C 26.7
(3)
A 		15.6
(-1.1)
A 		12.1
(-2.4)
A 		10.4
(-3)
A 		20.2
(0.6)
A 		12.5
(-2.2)
A 		16
avr 21.7
(3) 		16
(0.1) 		10
(-3) 		12.4
(-1.8) 		16.7
(0.4) 		10.8
(-2.6) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191422_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12012
Sequence Type Exemplar sequence
Representative Public ID ZK287.8 NCBI
Target Description ZK287.8 /REP_DB=WormBase Gene ID /WP=CE06617 /GEN=her-1 /TR=SW:P34704 /GB=CAA94804.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=HER-1 protein
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_001029139(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029139 NCBI Caenorhabditis elegans HERmaphrodization of XO animals family member (her-1) (her-1) mRNA, complete cds. 11/11 None
ZK287.8a ENSEMBL cdna:known chromosome:CEL140:V:9699712:9704134:1 gene:ZK287.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001029140 6/11 Cross Hyb Matching Probes None
SNAP00000034527 4/11 Cross Hyb Matching Probes None
GENEFINDER00000034528 6/11 Cross Hyb Matching Probes None
ZK287.8b 6/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
179360 2 1 NM_001029139 191422_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:9699711-9704134(+) 100.0 100.0
Public Domain and Genome References
Ensembl ZK287.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94804 Hypothetical protein ZK287.8a [Caenorhabditis elegans] ref|NP_001024310.1| HERmaphrodization of XO animals family member (her-1) [Caenorhabditis elegans] emb|CAA79650.1| her-1 protein [Caenorhabditis elegans] sp|P34704|HER1_CAEEL Her-1 protein precursor 1.0E-101
blast 1SZH Chain , Crystal Structure Of C. Elegans Her-1 pdb|1SZH|A Chain A, Crystal Structure Of C. Elegans Her-1 6.0E-89
blast CAE72232 Hypothetical protein CBG19345 [Caenorhabditis briggsae] 2.0E-58
Sequence
Target Sequence 
>C. ELEGANS:191422_AT
gatatctcccaatttttgtgtttctcggatcatttggctatacggaaactacattaacaa
aggaacttatcaaagatgcagctgagaaatgctgtacaagaaaccgtcaagaatgttgca
ttgaaattatgaaatttggaaccccaattcgatgtggttatgacagggatccgaagctac
ccggatatgtctacaaatgtcttcaaaatgtgttgtttgcaaaagaaccaaagaaaaaga
ttaacttggatgactccgtgtgctgctccgtgtttggcaacgaccaaaacgattctggaa
gaagatgtgagaatcgttgcaagaacctcatgaccagcccttccatcgacgctgccacac
gtctggacagcatcaaaagttgctcgcttctggataatgtactgtataaatgttttgaga
aatgccggagcctccgtaaagatggtatcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATATCTCCCAATTTTTGTGTTTCT 209 427 17 Antisense
GTGTTTCTCGGATCATTTGGCTATA 439 483 34 Antisense
GGAACCCCAATTCGATGTGGTTATG 35 531 154 Antisense
ATGACAGGGATCCGAAGCTACCCGG 374 43 176 Antisense
TAACTTGGATGACTCCGTGTGCTGC 259 639 258 Antisense
CTGCTCCGTGTTTGGCAACGACCAA 606 233 279 Antisense
TCGTTGCAAGAACCTCATGACCAGC 664 603 330 Antisense
TGCCACACGTCTGGACAGCATCAAA 102 587 369 Antisense
GTTGCTCGCTTCTGGATAATGTACT 33 441 395 Antisense
GTTTTGAGAAATGCCGGAGCCTCCG 2 449 428 Antisense
GGAGCCTCCGTAAAGATGGTATCAA 229 523 443 Antisense
Sequence Source Affymetrix Proprietary Database