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[176976_at]

Description H08J11.C /REP_DB=WormBase Gene ID /WP=CE20947 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF35972.1
Cluster 6grp_high1_10_10 > 24      4grp_high_8_8 > 43      6grp_total > 11      4grp_total > 53      6grp_cgc > 43      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 185.2
(1.2)
P 		209
(3)
P 		132.7
(-2.9)
P 		131
(-3)
A 		78
B 177.7
(3)
P 		163.2
(1.8)
P 		151.7
(0.9)
P 		102.4
(-3)
P 		75
C 214.8
(3)
P 		159.5
(-0.5)
P 		176.4
(0.6)
P 		119
(-3)
P 		96
avr 192.6
(3) 		177.2
(1.8) 		153.6
(-0.1) 		117.5
(-3) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 96
(-2.3)
A 		245.6
(3)
P 		77
(-3)
P 		87.9
(-2.6)
P 		104
(-2)
P 		99.8
(-2.2)
P 		169
B 114.5
(1)
P 		144.4
(3)
P 		92.2
(-0.6)
P 		96.8
(-0.2)
P 		86.2
(-1)
P 		56.2
(-3)
P 		88
C 169.2
(0.8)
P 		118.4
(-1.3)
P 		225.6
(3)
P 		75
(-3)
A 		134.9
(-0.6)
P 		87.5
(-2.5)
P 		151
avr 126.6
(0.1) 		169.5
(3) 		131.6
(0.4) 		86.6
(-2.6) 		108.4
(-1.2) 		81.2
(-3) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 67.4
(3)
P 		45.4
(0.3)
P 		34.7
(-1.1)
P 		19.2
(-3)
A 		48
B 56.7
(3)
P 		40.3
(0.2)
P 		35.1
(-0.7)
P 		21.8
(-3)
P 		35
C 71.1
(3)
P 		45.8
(0)
P 		61.5
(1.9)
P 		20.1
(-3)
P 		51
avr 65.1
(3) 		43.8
(0.1) 		43.8
(0.1) 		20.4
(-3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 17.7
(-2.9)
A 		87.4
(3)
P 		16.8
(-3)
P 		22.3
(-2.5)
P 		31.4
(-1.8)
P 		24.3
(-2.4)
P 		71
B 39.8
(1.2)
P 		48.1
(3)
P 		22.4
(-2.7)
P 		25.6
(-2)
P 		35
(0.1)
P 		21
(-3)
P 		27
C 62.7
(3)
P 		36.1
(-0.4)
P 		57.4
(2.3)
P 		15.1
(-3)
A 		43.7
(0.6)
P 		29.3
(-1.2)
P 		48
avr 40.1
(0.2) 		57.2
(3) 		32.2
(-1.1) 		21
(-3) 		36.7
(-0.4) 		24.9
(-2.4) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176976_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19553
Sequence Type Exemplar sequence
Representative Public ID H08J11.C NCBI
Target Description H08J11.C /REP_DB=WormBase Gene ID /WP=CE20947 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF35972.1
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_077136, NM_077135, NM_171966, NM_077137
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077137 NCBI Caenorhabditis elegans Apical Junction Molecule family member (ajm-1) (ajm-1) mRNA, complete cds. A 
SNAP00000000369 ENSEMBL cdna:SNAP chromosome:CEL140:X:9098280:9098764:1 None
GENEFINDER00000000375 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9098280:9099851:1 None
NM_171966 NCBI Caenorhabditis elegans Apical Junction Molecule family member (ajm-1) (ajm-1) mRNA, complete cds. A 
C25A11.4a ENSEMBL cdna:known chromosome:CEL140:X:9098280:9113258:1 gene:C25A11.4 A 
NM_077135 NCBI Caenorhabditis elegans Apical Junction Molecule family member (ajm-1) (ajm-1) mRNA, complete cds. A 
C25A11.4d ENSEMBL cdna:known chromosome:CEL140:X:9098280:9113534:1 gene:C25A11.4 A 
C25A11.4c ENSEMBL cdna:known chromosome:CEL140:X:9098280:9110979:1 gene:C25A11.4 A 
C25A11.4b ENSEMBL cdna:known chromosome:CEL140:X:9098280:9108525:1 gene:C25A11.4 A 
NM_077136 NCBI Caenorhabditis elegans Apical Junction Molecule family member (ajm-1) (ajm-1) mRNA, complete cds. A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_077133 2/11 Cross Hyb Matching Probes None
SNAP00000011953 2/11 Cross Hyb Matching Probes None
H08J11.2 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:9097220-9098704(+) 100.0 100.0
Public Domain and Genome References
Ensembl C25A11.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM51517 Apical junction molecule protein 1, isoform d [Caenorhabditis elegans] ref|NP_741868.1| Apical Junction Molecule family member (ajm-1) [Caenorhabditis elegans] 0.0
blast AAK39187 Apical junction molecule protein 1, isoform a [Caenorhabditis elegans] ref|NP_509536.1| Apical Junction Molecule family member (ajm-1) [Caenorhabditis elegans] 0.0
blast CAE57282 Hypothetical protein CBG00187 [Caenorhabditis briggsae] 0.0
blast AAK39188 Apical junction molecule protein 1, isoform c [Caenorhabditis elegans] ref|NP_509537.1| Apical Junction Molecule family member (ajm-1) [Caenorhabditis elegans] 0.0
blast T15598 hypothetical protein C25A11.4a - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
scop a.2.7.Seryl-tRNA synthetase (SerRS) All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Seryl-tRNA synthetase (SerRS) 4.09999990463257
scop a.2.7.Seryl-tRNA synthetase (SerRS) All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Seryl-tRNA synthetase (SerRS) 3.90000009536743
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509538.1 1 918-940
C25A11.4b 1 918-940
GENEFINDER00000000375 2 123-142,152-174
Sequence
Target Sequence 
>C. ELEGANS:176976_AT
tttcagggacgacaacgcttcacttcgctctgcatctatcacatttgacgcaaatcgcga
cgagcaagatttgttgaacgaatcttttgcttcaaacccaactgatgagacagtgttgat
gcaaaaaaccaaggacgaaatggatgcaaccagcgagcgtccaagatcaccattagacct
tccacctccaccagcatcagttgttcttcatccgtctgctcctccaccgccaccgcctcc
attgagctcgacagaagttgttggaaatactaccactacaactacgacgcactacgctcc
aaaaacgtggaacgatccgtccatcacaactgctccaaaaattccagtttccttactgtc
aggagcacaaccactgccaagtgttttaacacaaagaaccactacaagctcttacagtgc
tccaaattattcaggtaagaaaataatttcaagcctaccaaaaaagctctctcttgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCAGGGACGACAACGCTTCACTT 520 669 54 Antisense
TTCGCTCTGCATCTATCACATTTGA 614 695 77 Antisense
GAATCTTTTGCTTCAAACCCAACTG 154 327 133 Antisense
ATGGATGCAACCAGCGAGCGTCCAA 679 51 193 Antisense
CCAAGATCACCATTAGACCTTCCAC 691 275 214 Antisense
GCCTCCATTGAGCTCGACAGAAGTT 677 281 288 Antisense
AAACGTGGAACGATCCGTCCATCAC 584 115 356 Antisense
TGCTCCAAAAATTCCAGTTTCCTTA 115 583 384 Antisense
GGAGCACAACCACTGCCAAGTGTTT 531 519 415 Antisense
ACTACAAGCTCTTACAGTGCTCCAA 474 101 454 Antisense
GCCTACCAAAAAAGCTCTCTCTTGC 614 279 506 Antisense
Sequence Source Affymetrix Proprietary Database