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[186202_s_at]

Description F39H12.4 /REP_DB=WormBase Gene ID /WP=CE24963 /TR=Q9TXI8 /GB=AAF23186.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 23      4grp_high_8_8 > 45      6grp_highest_nonorm > 51      6grp_total > 03      4grp_total > 50      6grp_highest_sub > 02      6grp_cgc > 51      6grp_high1_sub > 02      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 672
1 2 3 4 range
A 225.6
(-2.8)
P 		834.1
(3)
P 		630.1
(1.1)
P 		199.6
(-3)
M 		635
B 247.1
(-2.2)
P 		827.3
(3)
P 		699.2
(1.8)
P 		162.6
(-3)
P 		665
C 238.2
(-3)
P 		820.7
(3)
P 		749.2
(2.3)
P 		242.1
(-3)
P 		583
avr 237
(-2.7) 		827.4
(3) 		692.8
(1.7) 		201.4
(-3) 		626

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 543
1 2 3 4 5 6 range
A 571.2
(0.9)
P 		760.5
(3)
P 		410.8
(-0.9)
P 		624.9
(1.5)
P 		483.1
(-0.1)
P 		217.5
(-3)
P 		543
B 561.4
(1)
P 		717.9
(3)
P 		458.1
(-0.3)
P 		636.3
(2)
P 		388.9
(-1.2)
P 		251
(-3)
P 		467
C 495.6
(-0.1)
P 		756.6
(3)
P 		490.2
(-0.1)
P 		623
(1.4)
P 		430.6
(-0.8)
P 		245.7
(-3)
P 		511
avr 542.7
(0.6) 		745
(3) 		453
(-0.5) 		628.1
(1.6) 		434.2
(-0.7) 		238.1
(-3) 		507
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 232
1 2 3 4 range
A 82.1
(-0.9)
P 		181.1
(3)
P 		164.7
(2.4)
P 		29.2
(-3)
M 		152
B 78.8
(-1.4)
P 		204.3
(3)
P 		162
(1.5)
P 		34.6
(-3)
P 		170
C 78.8
(-2)
P 		235.9
(2.3)
P 		261.1
(3)
P 		40.8
(-3)
P 		220
avr 79.9
(-1.4) 		207.1
(3) 		195.9
(2.6) 		34.9
(-3) 		172

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 218
1 2 3 4 5 6 range
A 105.3
(-1.6)
P 		270.5
(3)
P 		89.5
(-2)
P 		158.5
(-0.1)
P 		145.8
(-0.4)
P 		53
(-3)
P 		218
B 195.4
(1.2)
P 		239
(3)
P 		111.2
(-2.3)
P 		168.5
(0.1)
P 		158
(-0.3)
P 		93.6
(-3)
P 		145
C 183.7
(1.1)
P 		230.9
(3)
P 		124.8
(-1.3)
P 		125.3
(-1.3)
P 		139.3
(-0.7)
P 		82.2
(-3)
P 		149
avr 161.5
(-0) 		246.8
(3) 		108.5
(-1.9) 		150.8
(-0.4) 		147.7
(-0.5) 		76.3
(-3) 		171
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186202_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18178
Sequence Type Exemplar sequence
Representative Public ID F39H12.4 NCBI
Target Description F39H12.4 /REP_DB=WormBase Gene ID /WP=CE24963 /TR=Q9TXI8 /GB=AAF23186.1 /SUBMIT=ST.LOUIS /CHR=X /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_075765(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075765 NCBI Caenorhabditis elegans ImmunoGlobulin-like Cell adhesion Molecule family member (igcm-1) (igcm-1) mRNA, complete cds. 11/11 None
SNAP00000043079 ENSEMBL cdna:SNAP chromosome:CEL140:X:845902:851386:-1 11/11 None
GENEFINDER00000043080 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:845902:851518:-1 11/11 None
F39H12.4 ENSEMBL cdna:known chromosome:CEL140:X:845766:851506:-1 gene:F39H12.4 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
chrX:845901-851500(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol igcm-1
Ensembl F39H12.4
Entrez Gene 180433 Entrez gene
SwissProt Q9TXI8 EMBL-EBI
WormBase CE24963 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1627506_AT echinoid dm
DROSGENOME1:151631_AT echinoid dm
DROSGENOME1:145747_AT echinoid dm
DROSGENOME1:145746_AT echinoid dm
DROSGENOME1:142573_AT echinoid dm
Protein Similarities
Method ID Description E-Value
blast AAF23186 Immunoglobulin-like cell adhesion molecule family protein 1 [Caenorhabditis elegans] ref|NP_508166.1| ImmunoGlobulin-like Cell adhesion Molecule family member (igcm-1) [Caenorhabditis elegans] 0.0
blast CAE63611 Hypothetical protein CBG08103 [Caenorhabditis briggsae] 0.0
blast EAL33549 GA11750-PA [Drosophila pseudoobscura] 2.0E-71
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.8E-10
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.1
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.0
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 9.5E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.5E-8
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.0E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 3.9E-9
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.8E-10
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.1
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.0
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 9.5E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.5E-8
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.0E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 3.9E-9
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.8E-10
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.1
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.0
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 9.5E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.5E-8
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.0E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 3.9E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508166.1 1 942-964
F39H12.4 1 942-964
SNAP00000043079 1 921-943
GENEFINDER00000043080 2 12-34,948-970
Sequence
Target Sequence 
>C. ELEGANS:186202_S_AT
ttgagccaaaactaccatcggatgcttgcacattgctctacgtatttcttgatggaatat
ggagaaccagcacttgccatacatcaagcaaccctatcggaaatatcattcctggaagag
aatatagagcaaggttctgcacaactgctaatggacttaaatgctcaccagtttctaaaa
ctatttcaagcggttctggttcagtttggaagaccaacgtgtttttcccatttttattct
tcattttcattggtcttgctatctgcgtattcttccttgtctgctgcaaaactcgatcaa
atccaaaaacttcaaaactttcgccaatcattcttacttccctacctggagatgaattga
aaaggcctgcagattatgaagaaccaaagcacgcaacatttgcaataacggaaaacgaaa
ctaatcatttgagtcaacatgatgcaaagtcgacgaaaccgcccggtttgaatatggaat
atgatgtgtccacagattgttatttacaagaaaatacagaagttttaaaaaatacttcac
tatccggctttacaaacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGAGCCAAAACTACCATCGGATGC 348 703 2618 Antisense
GATGCTTGCACATTGCTCTACGTAT 544 413 2638 Antisense
AGAACCAGCACTTGCCATACATCAA 89 75 2680 Antisense
CATACATCAAGCAACCCTATCGGAA 571 213 2695 Antisense
GCAAGGTTCTGCACAACTGCTAATG 595 321 2746 Antisense
GGACTTAAATGCTCACCAGTTTCTA 193 523 2770 Antisense
TGGTCTTGCTATCTGCGTATTCTTC 696 551 2868 Antisense
TCCTTGTCTGCTGCAAAACTCGATC 270 591 2891 Antisense
TTCTTACTTCCCTACCTGGAGATGA 156 691 2948 Antisense
GATGCAAAGTCGACGAAACCGCCCG 581 411 3058 Antisense
ACTTCACTATCCGGCTTTACAAACG 181 103 3151 Antisense
Sequence Source Affymetrix Proprietary Database