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[188449_s_at]

Description Y54E5B.1 /REP_DB=WormBase Gene ID /WP=CE19225 /GEN=smp-1 /TR=SW:Q17330 /GB=CAA21714.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 69      4grp_highest_8_8 > 05      4grp_high_8_8 > 29      6grp_highest_nonorm > 74      6grp_total > 79      4grp_total > 34      6grp_cgc > 19      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 380
1 2 3 4 range
A 521.4
(-3)
P 		900.2
(3)
P 		531.1
(-2.8)
P 		748.2
(0.6)
P 		379
B 520.2
(-3)
P 		702.7
(1.1)
P 		523.3
(-2.9)
P 		784.7
(3)
P 		265
C 526.9
(-3)
P 		782.5
(3)
P 		601.6
(-1.2)
P 		777.5
(2.9)
P 		256
avr 522.8
(-3) 		795.1
(3) 		552
(-2.4) 		770.1
(2.4) 		272

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 285
1 2 3 4 5 6 range
A 696.8
(0.1)
P 		750.6
(1.2)
P 		551.7
(-3)
P 		667.5
(-0.6)
P 		745.1
(1.1)
P 		836.6
(3)
P 		285
B 608
(-1.5)
P 		708.2
(1.4)
P 		556.8
(-3)
P 		765.2
(3)
P 		693.3
(0.9)
P 		744.2
(2.4)
P 		208
C 640.6
(-2.6)
P 		675.2
(-0.9)
P 		656.3
(-1.9)
P 		633.3
(-3)
P 		754
(3)
P 		716.2
(1.1)
P 		121
avr 648.5
(-1) 		711.3
(1.2) 		588.3
(-3) 		688.7
(0.4) 		730.8
(1.8) 		765.7
(3) 		177
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 189.8
(2.6)
P 		195.4
(3)
P 		138.9
(-0.9)
P 		109.5
(-3)
P 		86
B 165.9
(2.1)
P 		173.5
(3)
P 		121.3
(-3)
P 		167.2
(2.3)
P 		52
C 174.4
(-0.2)
P 		225
(3)
P 		209.7
(2)
P 		131.1
(-3)
P 		94
avr 176.7
(0.9) 		198
(3) 		156.6
(-1) 		135.9
(-3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 162
1 2 3 4 5 6 range
A 128.4
(-2.7)
P 		266.9
(3)
P 		120.1
(-3)
P 		169.3
(-1)
P 		224.9
(1.3)
P 		203.7
(0.4)
P 		147
B 211.6
(0.1)
P 		235.7
(1.1)
P 		135.2
(-3)
P 		202.7
(-0.2)
P 		281.7
(3)
P 		277.5
(2.8)
P 		147
C 237.5
(2.7)
P 		206
(1)
P 		167
(-1)
P 		127.4
(-3)
P 		244
(3)
P 		239.8
(2.8)
P 		117
avr 192.5
(-0.2) 		236.2
(2.2) 		140.8
(-3) 		166.5
(-1.6) 		250.2
(3) 		240.3
(2.5) 		109
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188449_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.448
Sequence Type Exemplar sequence
Representative Public ID Y54E5B.1 NCBI
Target Description Y54E5B.1 /REP_DB=WormBase Gene ID /WP=CE19225 /GEN=smp-1 /TR=SW:Q17330 /GB=CAA21714.1 /SUBMIT=HINXTON /CHR=1 /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_061181(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061181 NCBI Caenorhabditis elegans SeMaPhorin related family member (smp-1) (smp-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000016375 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14817052:14823448:1 11/11 None
SNAP00000016370 ENSEMBL cdna:SNAP chromosome:CEL140:I:14818503:14823448:1 11/11 None
Y54E5B.1a ENSEMBL cdna:known chromosome:CEL140:I:14815586:14823832:1 gene:Y54E5B.1 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173351 2 1 NM_061181 188449_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:14815528-14823379(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y54E5B.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21714 Hypothetical protein Y54E5B.1a [Caenorhabditis elegans] ref|NP_493582.3| SeMaPhorin related family member (smp-1) [Caenorhabditis elegans] sp|Q17330|SEM1A_CAEEL Semaphorin 1A precursor (CeSema) 0.0
blast CAE72526 Hypothetical protein CBG19706 [Caenorhabditis briggsae] 0.0
blast AAA51021 CeSema 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001627 EMBL-EBI Semaphorin/CD100 antigen 1.0E-126
Pfam IPR002165 EMBL-EBI Plexin 1.1E-10
Pfam IPR001627 EMBL-EBI Semaphorin/CD100 antigen 1.8E-67
Pfam IPR001627 EMBL-EBI Semaphorin/CD100 antigen 5.6E-65
Pfam IPR001627 EMBL-EBI Semaphorin/CD100 antigen 9.1E-45
Pfam IPR002165 EMBL-EBI Plexin 1.1E-10
Pfam IPR001627 EMBL-EBI Semaphorin/CD100 antigen 1.0E-126
Pfam IPR002165 EMBL-EBI Plexin 1.1E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493582.3 1 580-602
Y54E5B.1a 1 580-602
GENEFINDER00000016375 1 637-659
SNAP00000016370 1 564-586
Sequence
Target Sequence 
>C. ELEGANS:188449_S_AT
ggacaggcgaccaattcatccaaaatatggtattcggccaatccgagcagtgtcctgaag
gaatcattgtcagagaagtattcgatgataatgaaagtgaagcacaaccggaagctgtct
cgagaagcggatatcccaaggaacactctacgattactgtagtactagttgccgctgttg
catcgttaatatctctgatcattggagcatttatcggtattcgcgtcaatcgatgggctg
ccacgtcggaaccgcatcgatccgctagctcgacgagtggctcggattacgatagcttcg
gaagagcacgactgacaagacacgactcactgacgactgcaacaaaagtggatcacggat
ttgtgcctcaatccaaacagagcgtggacgccacgtcattggtaatgtcaataaatgcca
cgcatcatccaatgtcaatgagccaacacgggtctggaatcaacactccgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACAGGCGACCAATTCATCCAAAA 263 525 1598 Antisense
GCCAATCCGAGCAGTGTCCTGAAGG 43 279 1634 Antisense
TGAAGCACAACCGGAAGCTGTCTCG 242 575 1695 Antisense
TAGTTGCCGCTGTTGCATCGTTAAT 630 651 1763 Antisense
TCAATCGATGGGCTGCCACGTCGGA 264 631 1823 Antisense
GATCCGCTAGCTCGACGAGTGGCTC 47 417 1856 Antisense
GACAAGACACGACTCACTGACGACT 462 365 1911 Antisense
GTGGATCACGGATTTGTGCCTCAAT 531 489 1945 Antisense
TGGACGCCACGTCATTGGTAATGTC 481 543 1982 Antisense
TGCCACGCATCATCCAATGTCAATG 175 587 2013 Antisense
CGGGTCTGGAATCAACACTCCGTCA 193 241 2046 Antisense
Sequence Source Affymetrix Proprietary Database