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[172013_x_at]

Description AU116366_rc /REP_DB=TREMBL Accession /GB=AU116366 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk743h10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 57      6grp_total > 37      4grp_total > 05      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5262
1 2 3 4 range
A 4357
(-0.3)
P 		2636.4
(-2.4)
P 		2124.8
(-3)
P 		7159.9
(3)
P 		5035
B 3740.7
(-0.8)
P 		2122.1
(-2.7)
P 		1898
(-3)
P 		6976.2
(3)
P 		5078
C 3603.6
(-0.7)
P 		2328.5
(-2.7)
P 		2151.5
(-3)
P 		5927.4
(3)
P 		3776
avr 3900.4
(-0.6) 		2362.3
(-2.6) 		2058.1
(-3) 		6687.8
(3) 		4630

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1052
1 2 3 4 5 6 range
A 2588.2
(1.7)
P 		2169.4
(-2.6)
P 		2212.7
(-2.2)
P 		2292.4
(-1.3)
P 		2129.9
(-3)
P 		2719.6
(3)
P 		590
B 2997.6
(3)
P 		2895.8
(2.4)
P 		2443.1
(-0.5)
P 		2450.1
(-0.5)
P 		2055.9
(-3)
P 		2697
(1.1)
P 		942
C 2637.6
(2.1)
P 		2761.4
(3)
P 		1945.7
(-3)
P 		2407.2
(0.4)
P 		2229
(-0.9)
P 		2761.6
(3)
P 		816
avr 2741.1
(3) 		2608.9
(1.7) 		2200.5
(-2.4) 		2383.2
(-0.6) 		2138.3
(-3) 		2726.1
(2.9) 		603
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1147
1 2 3 4 range
A 1586.4
(3)
P 		572.3
(-2.9)
P 		555.5
(-3)
P 		1048.1
(-0.1)
P 		1031
B 1192.9
(1.3)
P 		524.1
(-2.5)
P 		439.8
(-3)
P 		1486.6
(3)
P 		1047
C 1192.9
(3)
P 		669.5
(-3)
P 		749.9
(-2.1)
P 		999.5
(0.8)
P 		523
avr 1324.1
(3) 		588.6
(-2.9) 		581.7
(-3) 		1178.1
(1.8) 		742

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 566
1 2 3 4 5 6 range
A 477.1
(-3)
P 		771.6
(3)
P 		481.9
(-2.9)
P 		581.4
(-0.9)
P 		642.7
(0.4)
P 		662.1
(0.8)
P 		295
B 1043
(3)
P 		963.9
(1.9)
P 		593.3
(-3)
P 		648.9
(-2.3)
P 		835.3
(0.2)
P 		1005.7
(2.5)
P 		450
C 977.7
(3)
P 		842.6
(1.4)
P 		495.2
(-2.9)
P 		484.1
(-3)
P 		721.3
(-0.1)
P 		924.5
(2.4)
P 		494
avr 832.6
(2.4) 		859.4
(2.9) 		523.5
(-3) 		571.5
(-2.2) 		733.1
(0.7) 		864.1
(3) 		341
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172013_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28006
Sequence Type Exemplar sequence
Representative Public ID AU116366 NCBI
Target Description AU116366_rc /REP_DB=TREMBL Accession /GB=AU116366 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk743h10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_066109(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066109 NCBI Caenorhabditis elegans mammalian BYstiN (adhesion protein) related family member (byn-1) (byn-1) mRNA, complete cds. 10/11 A 
F57B9.5.2 ENSEMBL cdna:known chromosome:CEL140:III:6931930:6935780:1 gene:F57B9.5 10/11 A 
F57B9.5.1 ENSEMBL cdna:known chromosome:CEL140:III:6931932:6935793:1 gene:F57B9.5 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019897 7/11 Cross Hyb Matching Probes None
GENEFINDER00000019908 1/11 Cross Hyb Matching Probes None
GENEFINDER00000019913 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6933535-6935729(+) 98.35 98.35
Public Domain and Genome References
Gene Title
Gene Symbol byn-1
Ensembl F57B9.5
Entrez Gene 175968 Entrez gene
SwissProt Q20932 EMBL-EBI
WormBase CE25013 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246575_AT bystin family at
CANINE:1606088_AT similar to bystin cfa
CANINE_2:CFA.19708.1.S1_AT similar to bystin cfa
CANINE_2:CFAAFFX.3333.1.S1_S_AT similar to bystin cfa
DROSOPHILA_2:1640145_AT by S6 dm
DROSGENOME1:153812_AT by S6 dm
YEAST_2:1774721_AT Protein associated with U3 and U14 snoRNAs, required for pre-rRNA processing and 40S ribosomal subunit synthesis; localized in the nucleus and concentrated in the nucleolus Sc
Protein Similarities
Method ID Description E-Value
blast AAA21176 Mammalian bystin (adhesion protein) related protein 1 [Caenorhabditis elegans] ref|NP_498510.1| mammalian BYstiN (adhesion protein) related family member (byn-1) [Caenorhabditis elegans] sp|Q20932|BYN1_CAEEL Cell adhesion protein byn-1 0.0
blast CAE70047 Hypothetical protein CBG16479 [Caenorhabditis briggsae] 0.0
blast B88493 protein F57B9.5 [imported] - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007955 EMBL-EBI Bystin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:172013_X_AT
gaaggcagctatttatgagctgatcagattccatggacactatctcatctcgcctgaaat
tcgccgtgagctcgaatccaaggaaaccgaagacggacatgttatcacttcagttgtggt
cgaaggccgaaagacggatagtatggaattctaaannnnnnnnnnnnnnnnnnnnnnnnn
nnnnnnnnnnatttcccgctttcactctattctgcacgtaggctttgctcttttatta

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGCAGCTATTTATGAGCTGATC 593 333 15 Antisense
GAGCTGATCAGATTCCATGGACACT 355 387 31 Antisense
GATTCCATGGACACTATCTCATCTC 540 433 41 Antisense
GAAATTCGCCGTGAGCTCGAATCCA 624 363 70 Antisense
GCCGTGAGCTCGAATCCAAGGAAAC 515 283 77 Antisense
AGACGGACATGTTATCACTTCAGTT 468 71 105 Antisense
ATGTTATCACTTCAGTTGTGGTCGA 684 45 113 Antisense
GTTGTGGTCGAAGGCCGAAAGACGG 572 325 127 Antisense
CTTTCACTCTATTCTGCACGTAGGC 198 223 213 Antisense
TATTCTGCACGTAGGCTTTGCTCTT 107 665 222 Antisense
GCACGTAGGCTTTGCTCTTTTATTA 400 315 228 Antisense
Sequence Source Affymetrix Proprietary Database