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[186861_s_at]

Description Y38C1BA.2 /REP_DB=WormBase Gene ID /WP=CE28520 /TR=Q9N528 /GB=AAF60504.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 70      6grp_total > 05      4grp_total > 62      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 152
1 2 3 4 range
A 316
(3)
P 		301.8
(1.6)
P 		258.6
(-2.7)
P 		255.8
(-3)
P 		60
B 321.3
(3)
P 		186.5
(-2.3)
P 		290.8
(1.8)
P 		169.8
(-3)
P 		152
C 255.7
(3)
P 		240.8
(1.9)
P 		212.8
(-0.2)
P 		175.2
(-3)
P 		81
avr 297.7
(3) 		243
(-0.4) 		254.1
(0.3) 		200.3
(-3) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 339
1 2 3 4 5 6 range
A 431.1
(3)
P 		238.3
(-0.6)
P 		203.1
(-1.3)
P 		180
(-1.7)
P 		199.1
(-1.4)
P 		111.7
(-3)
P 		319
B 450.7
(3)
P 		341.3
(0.8)
P 		226.8
(-1.4)
P 		212.7
(-1.7)
P 		270.1
(-0.6)
P 		147.7
(-3)
P 		303
C 265.7
(0.3)
P 		385.2
(3)
P 		198.3
(-1.3)
P 		145
(-2.5)
P 		121.8
(-3)
P 		152.8
(-2.3)
P 		263
avr 382.5
(3) 		321.6
(1.5) 		209.4
(-1.2) 		179.2
(-2) 		197
(-1.5) 		137.4
(-3) 		245
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 115.1
(3)
P 		65.5
(-0.8)
P 		67.6
(-0.7)
P 		37.4
(-3)
P 		78
B 102.5
(3)
P 		46.1
(-2.1)
P 		67.4
(-0.2)
P 		36.2
(-3)
P 		66
C 84.7
(3)
P 		69.2
(1.3)
P 		74.2
(1.9)
P 		29.5
(-3)
P 		55
avr 100.8
(3) 		60.3
(-0.7) 		69.7
(0.2) 		34.4
(-3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 130
1 2 3 4 5 6 range
A 79.5
(2.4)
P 		84.8
(3)
P 		44.2
(-1.2)
P 		45.6
(-1.1)
P 		60.1
(0.4)
P 		27.2
(-3)
P 		58
B 156.8
(3)
P 		113.6
(0.5)
P 		55.1
(-3)
P 		56.3
(-2.9)
P 		109.7
(0.2)
P 		55.1
(-3)
P 		102
C 98.5
(1.7)
P 		117.5
(3)
P 		50.5
(-1.6)
P 		29.2
(-3)
P 		39.4
(-2.3)
P 		51.1
(-1.5)
P 		88
avr 111.6
(3) 		105.3
(2.4) 		49.9
(-2.5) 		43.7
(-3) 		69.7
(-0.7) 		44.5
(-2.9) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186861_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11057
Sequence Type Exemplar sequence
Representative Public ID Y38C1BA.2 NCBI
Target Description Y38C1BA.2 /REP_DB=WormBase Gene ID /WP=CE28520 /TR=Q9N528 /GB=AAF60504.1 /SUBMIT=ST.LOUIS /CHR=4 /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_171277(11), NM_171276(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171277 NCBI Caenorhabditis elegans SyNapsiN family member (snn-1) (snn-1) mRNA, complete cds. 11/11 None
NM_171276 NCBI Caenorhabditis elegans SyNapsiN family member (snn-1) (snn-1) mRNA, complete cds. 11/11 None
SNAP00000017747 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1805171:1808949:-1 11/11 None
GENEFINDER00000017750 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1805171:1806766:-1 11/11 None
Y38C1BA.2a ENSEMBL cdna:known chromosome:CEL140:IV:1805035:1815097:-1 gene:Y38C1BA.2 11/11 None
Y38C1BA.2b ENSEMBL cdna:known chromosome:CEL140:IV:1805171:1815094:-1 gene:Y38C1BA.2 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
chrIV:1805176-1808497(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y38C1BA.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM97971 Synapsin protein 1, isoform b [Caenorhabditis elegans] ref|NP_741326.1| SyNapsiN family member (snn-1) [Caenorhabditis elegans] 0.0
blast AAF60504 Synapsin protein 1, isoform a [Caenorhabditis elegans] ref|NP_741327.1| SyNapsiN family member (snn-1) [Caenorhabditis elegans] gb|AAF08804.1| synapsin [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001359 EMBL-EBI Synapsin 9.7E-36
Pfam IPR001359 EMBL-EBI Synapsin 2.9E-10
Pfam IPR001359 EMBL-EBI Synapsin 9.7E-36
Pfam IPR001359 EMBL-EBI Synapsin 2.5E-10
Pfam IPR001359 EMBL-EBI Synapsin 9.7E-36
Pfam IPR001359 EMBL-EBI Synapsin 2.5E-10
Pfam IPR001359 EMBL-EBI Synapsin 5.4E-31
Sequence
Target Sequence 
>C. ELEGANS:186861_S_AT
caagtacgaccttcacatccaaaaaataggccacgagtacaaaaccttcattcgccgtgg
aatctgcaaacactggaagagcaacgttggctccagcgttttggagcaaatttccacgtg
tgagaggcacaaaaagtacctgaaagccatcacggatcacgtgggaccaatgcatatatg
ctccattgacattctcgtttcgaaggagggacgggagtttgtgcatgacgttaatgatgt
tatagcatacttcggggaatccgccgaagatgatcgccgggcagcaagtctactgctcag
agctctagtggctccaaggatcacatcaccaatagccgctgagcctcctgcaacttcgcc
aactacctcagcagtaactaatggtcatggaaatcatggacccgctcccgcagtgccaac
tcgccgtctcccaccacacccttcaagctcttcagctgctccgccacgtggccacatgtc
ggacaaagtagagtcgcgtcacaaggatcattacgatccaccaccacaaattccacgtac
aggatcccggg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGTACGACCTTCACATCCAAAAA 590 183 636 Antisense
GTACAAAACCTTCATTCGCCGTGGA 267 461 672 Antisense
GAAGAGCAACGTTGGCTCCAGCGTT 329 339 711 Antisense
GTACCTGAAAGCCATCACGGATCAC 428 457 771 Antisense
TATGCTCCATTGACATTCTCGTTTC 586 657 812 Antisense
GGGAATCCGCCGAAGATGATCGCCG 620 493 890 Antisense
ATGATCGCCGGGCAGCAAGTCTACT 31 47 905 Antisense
TAGTGGCTCCAAGGATCACATCACC 167 655 941 Antisense
CGCCAACTACCTCAGCAGTAACTAA 39 257 992 Antisense
CACGTGGCCACATGTCGGACAAAGT 539 199 1100 Antisense
CAAATTCCACGTACAGGATCCCGGG 378 193 1162 Antisense
Sequence Source Affymetrix Proprietary Database