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[191811_at] neural cell adhesion protein

Description SSSD1.1 /REP_DB=WormBase Gene ID /WP=CE04847 /TR=Q22040 /GB=AAA83273.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=neural cell adhesion protein
Cluster 6grp_high1_10_10 > 09      4grp_high_8_8 > 40      6grp_total > 91      4grp_total > 45      6grp_cgc > 97      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 122
1 2 3 4 range
A 113.5
(3)
P 		87.5
(0.1)
P 		85.7
(-0)
P 		58.8
(-3)
A 		55
B 142.6
(3)
P 		121.6
(2)
A 		20.9
(-3)
A 		71
(-0.5)
P 		122
C 115.8
(3)
P 		80.2
(-2.4)
A 		82
(-2.1)
P 		76.2
(-3)
P 		40
avr 124
(3) 		96.4
(0.3) 		62.9
(-3) 		68.7
(-2.4) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 80.3
(1)
A 		70.2
(0.3)
P 		20.5
(-3)
A 		110.5
(3)
P 		103.7
(2.5)
A 		85.5
(1.3)
P 		90
B 134.4
(3)
P 		125.1
(2.3)
P 		49.7
(-3)
P 		114.5
(1.6)
M 		120
(2)
P 		72.9
(-1.4)
P 		85
C 93.5
(-1.8)
P 		103.2
(-0.7)
P 		86.4
(-2.6)
A 		120.2
(1.3)
P 		135.1
(3)
P 		82.8
(-3)
P 		52
avr 102.7
(1.5) 		99.5
(1.2) 		52.2
(-3) 		115.1
(2.6) 		119.6
(3) 		80.4
(-0.5) 		67
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 41.3
(3)
P 		19
(-1.1)
P 		22.4
(-0.5)
P 		8.6
(-3)
A 		33
B 45.5
(3)
P 		30
(0.7)
A 		4.9
(-3)
A 		15.1
(-1.5)
P 		41
C 38.3
(3)
P 		23.1
(-0.6)
A 		28.6
(0.7)
P 		12.8
(-3)
P 		26
avr 41.7
(3) 		24
(-0.6) 		18.6
(-1.7) 		12.2
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 14.8
(-0.7)
A 		25
(1.6)
P 		4.5
(-3)
A 		28
(2.3)
P 		31.3
(3)
A 		20.8
(0.6)
P 		27
B 46.8
(2.7)
P 		41.7
(1.8)
P 		12.1
(-3)
P 		30.3
(-0)
M 		48.8
(3)
P 		27.2
(-0.5)
P 		37
C 34.6
(0.5)
P 		31.5
(-0.4)
P 		22
(-3)
A 		24.2
(-2.4)
P 		43.7
(3)
P 		27.7
(-1.4)
P 		22
avr 32.1
(1.1) 		32.7
(1.2) 		12.9
(-3) 		27.5
(0.1) 		41.3
(3) 		25.2
(-0.4) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191811_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16477
Sequence Type Exemplar sequence
Representative Public ID SSSD1.1 NCBI
Target Description SSSD1.1 /REP_DB=WormBase Gene ID /WP=CE04847 /TR=Q22040 /GB=AAA83273.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=neural cell adhesion 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_076672(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076672 NCBI Caenorhabditis elegans ImmunoGlobulin-like Cell adhesion Molecule family member (igcm-2) (igcm-2) mRNA, complete cds. 11/11 None
SNAP00000043890 ENSEMBL cdna:SNAP chromosome:CEL140:X:6379519:6382304:-1 11/11 None
SSSD1.1 ENSEMBL cdna:known chromosome:CEL140:X:6379439:6384800:-1 gene:SSSD1.1 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:6380094-6384598(-) 91.89 100.0
Public Domain and Genome References
Gene Title neural cell adhesion protein
Gene Symbol igcm-2
Ensembl SSSD1.1
Entrez Gene 180913 Entrez gene
SwissProt Q22040 EMBL-EBI
WormBase CE36317 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA83273 Hypothetical protein SSSD1.1 [Caenorhabditis elegans] ref|NP_509073.2| ImmunoGlobulin-like Cell adhesion Molecule family member (igcm-2) [Caenorhabditis elegans] 0.0
blast CAE61250 Hypothetical protein CBG05053 [Caenorhabditis briggsae] 0.0
blast XP_235959 PREDICTED: similar to immunoglobulin superfamily, member 9 [Rattus norvegicus] 6.0E-25
blast EAA06917 ENSANGP00000001527 [Anopheles gambiae str. PEST] ref|XP_311185.2| ENSANGP00000001527 [Anopheles gambiae str. PEST] 2.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.0E-8
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.6E-4
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.9E-9
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.4E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.7E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.9E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509073.2 1 487-509
SSSD1.1 1 487-509
SNAP00000043890 1 389-411
Sequence
Target Sequence 
>C. ELEGANS:191811_AT
agacttttgccgtacatgctcagaatgatgttacactgcaatggacatctattaagacat
cactgaatgaaacaattttggatcatttagaaccatttgtgtcctatcgtgtgagtatcg
aaagtgtgaatgcaaaaggatcgacaaattccacaacttataacagaaggagttgcacaa
gtctccatgctccagacaaattgtacttctgcggctacaacgagttatgttggaccgcag
ctgaaggagcatcatcatatagaattgagagtcgaacggaacctagcaaaaacttccagc
cattggccgaagtgttagaaacgtattatagacttgggaaagatgtcgacgagaccaagc
agaccatcttccgtgtccggagcacaagaccatcatatccacctagtgaacccagtaatg
ccttaagatacggaatagcagacaatgtggacctccctattttcatgcttgccgcagttt
tcggtcttctgttctgctttgcttgcggtttatttgcctggagatgtttccacaacaaga
ataaaaaatcaaagcgaagaaaaagcagaagcaattcgacgccctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGACTTTTGCCGTACATGCTCAGAA 483 71 1184 Antisense
GAACCATTTGTGTCCTATCGTGTGA 509 345 1273 Antisense
GGAGTTGCACAAGTCTCCATGCTCC 635 517 1352 Antisense
GTACTTCTGCGGCTACAACGAGTTA 596 457 1386 Antisense
CGACGAGACCAAGCAGACCATCTTC 371 251 1530 Antisense
TTCCGTGTCCGGAGCACAAGACCAT 109 695 1552 Antisense
GACAATGTGGACCTCCCTATTTTCA 469 363 1624 Antisense
TATTTTCATGCTTGCCGCAGTTTTC 537 661 1641 Antisense
GCAGTTTTCGGTCTTCTGTTCTGCT 249 311 1657 Antisense
TGTTCTGCTTTGCTTGCGGTTTATT 24 563 1673 Antisense
AAAGCAGAAGCAATTCGACGCCCTC 57 125 1745 Antisense
Sequence Source Affymetrix Proprietary Database