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[186205_at]

Description Y48A5A.1 /REP_DB=WormBase Gene ID /WP=CE25308 /TR=Q9TYM6 /GB=AAD12829.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 77      4grp_high_8_8 > 60      6grp_total > 79      4grp_total > 56      6grp_high1_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 77
1 2 3 4 range
A 106.1
(-3)
P 		153.4
(2.2)
P 		160.3
(3)
P 		106.4
(-3)
P 		54
B 183
(3)
P 		123.9
(-3)
P 		172.7
(2)
P 		125.3
(-2.9)
A 		59
C 132.4
(-3)
P 		160.5
(1.8)
P 		167.8
(3)
P 		139.7
(-1.8)
A 		35
avr 140.5
(-0.7) 		145.9
(0.1) 		166.9
(3) 		123.8
(-3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 126
1 2 3 4 5 6 range
A 143.9
(-0.3)
P 		119.3
(-3)
P 		120.8
(-2.8)
P 		132.4
(-1.6)
P 		119.4
(-3)
P 		174.6
(3)
P 		55
B 148.3
(-2.8)
P 		146.5
(-3)
P 		153.9
(-2)
P 		147.2
(-2.9)
P 		166.5
(-0.4)
P 		192.5
(3)
P 		46
C 125.8
(0.8)
P 		139.2
(1.7)
P 		123.8
(0.7)
P 		66.2
(-3)
A 		148.6
(2.3)
P 		159.8
(3)
P 		94
avr 139.3
(-0.6) 		135
(-1) 		132.8
(-1.3) 		115.3
(-3) 		144.8
(-0.1) 		175.6
(3) 		60
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 38.6
(2.2)
P 		33.3
(1)
P 		41.9
(3)
P 		15.6
(-3)
P 		26
B 58.4
(3)
P 		30.6
(-2.3)
P 		40
(-0.5)
P 		26.7
(-3)
A 		32
C 43.8
(0.5)
P 		46.1
(0.9)
P 		58.5
(3)
P 		23.6
(-3)
A 		35
avr 46.9
(3) 		36.7
(0.5) 		46.8
(3) 		22
(-3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 26.5
(-2.9)
P 		42.4
(3)
P 		26.3
(-3)
P 		33.6
(-0.3)
P 		36
(0.6)
P 		42.5
(3)
P 		16
B 51.6
(-0.5)
P 		48.8
(-1)
P 		37.4
(-3)
P 		39
(-2.7)
P 		67.6
(2.3)
P 		71.8
(3)
P 		34
C 46.6
(2)
P 		42.5
(1.4)
P 		31.5
(-0.3)
P 		13.3
(-3)
A 		48.1
(2.2)
P 		53.5
(3)
P 		40
avr 41.6
(-0.1) 		44.6
(0.5) 		31.7
(-2.3) 		28.6
(-3) 		50.6
(1.8) 		55.9
(3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186205_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10625
Sequence Type Exemplar sequence
Representative Public ID Y48A5A.1 NCBI
Target Description Y48A5A.1 /REP_DB=WormBase Gene ID /WP=CE25308 /TR=Q9TYM6 /GB=AAD12829.1 /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_067749(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067749 NCBI Caenorhabditis elegans Y48A5A.1 (Y48A5A.1) mRNA, complete cds. 10/11 None
SNAP00000012617 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1963849:1969474:1 10/11 None
GENEFINDER00000012625 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1965480:1969474:1 11/11 None
Y48A5A.1 ENSEMBL cdna:known chromosome:CEL140:IV:1965480:1969625:1 gene:Y48A5A.1 10/11 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:1963668-1969480(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y48A5A.1
Entrez Gene 176997 Entrez gene
SwissProt Q9TYM6 EMBL-EBI
WormBase CE37290 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.570.1.S1_AT similar to SHQ1 homolog cfa
CANINE_2:CFAAFFX.10612.1.S1_S_AT similar to SHQ1 homolog cfa
DROSOPHILA_2:1641115_AT dm
DROSGENOME1:149428_AT dm
CHICKEN:GGAAFFX.11716.1.S1_S_AT SHQ1 homolog (S. cerevisiae) gga
CHICKEN:GGAAFFX.4864.1.S1_AT SHQ1 homolog (S. cerevisiae) gga
CHICKEN:GGAAFFX.4864.2.S1_S_AT SHQ1 homolog (S. cerevisiae) gga
HG-U133_PLUS_2:219083_AT SHQ1 homolog (S. cerevisiae) hs
HG-U133A:219083_AT SHQ1 homolog (S. cerevisiae) hs
HG-U133A_2:219083_AT SHQ1 homolog (S. cerevisiae) hs
HU35KSUBC:RC_N93629_AT SHQ1 homolog (S. cerevisiae) hs
U133_X3P:G8922499_3P_AT SHQ1 homolog (S. cerevisiae) hs
U133_X3P:63009_3P_AT SHQ1 homolog (S. cerevisiae) hs
HG-U133A_2:63009_AT SHQ1 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:63009_AT SHQ1 homolog (S. cerevisiae) hs
HG-U133A:63009_AT SHQ1 homolog (S. cerevisiae) hs
HG-U95C:63009_AT SHQ1 homolog (S. cerevisiae) hs
HG-U95E:67586_AT SHQ1 homolog (S. cerevisiae) hs
HG-U95E:86016_AT SHQ1 homolog (S. cerevisiae) hs
MOUSE430_2:1428927_AT SHQ1 homolog (S. cerevisiae) mm
MOE430B:1428927_AT SHQ1 homolog (S. cerevisiae) mm
MG-U74CV2:166700_I_AT SHQ1 homolog (S. cerevisiae) mm
MOE430B:1444485_AT Ubc-like protein MMS2 (Mms2) mm
MOUSE430_2:1444485_AT Ubc-like protein MMS2 (Mms2) mm
MU19KSUBC:TC41885_AT Ubc-like protein MMS2 (Mms2) mm
RAE230B:1378940_AT similar to hypothetical protein FLJ10539 (predicted) rn
RAT230_2:1378940_AT similar to hypothetical protein FLJ10539 (predicted) rn
YEAST_2:1772209_AT Essential nuclear protein, required for accumulation of box H/ACA snoRNAs and for rRNA processing; interacts with Naf1p Sc
Protein Similarities
Method ID Description E-Value
blast NP_500150 Y48A5A.1 [Caenorhabditis elegans] gb|AAP13747.2| Hypothetical protein Y48A5A.1 [Caenorhabditis elegans] 0.0
blast T33900 hypothetical protein Y48A5A.1 - Caenorhabditis elegans 0.0
blast CAE74696 Hypothetical protein CBG22510 [Caenorhabditis briggsae] 1.0E-147
blast CAE74696 Hypothetical protein CBG22510 [Caenorhabditis briggsae] 1.0E-146
Protein Domains
Database ID Description E-Value
Pfam IPR007009 EMBL-EBI SHQ1 protein 1.0E-126
Pfam IPR007009 EMBL-EBI SHQ1 protein 1.0E-126
Pfam IPR007009 EMBL-EBI SHQ1 protein 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:186205_AT
gatttctgacgaagaccgcaccaaactgaaggatttgaaaaagtcgaaaacgtcagcaaa
aatcaatggaaatgacgtggaaattatgacgtcactaatcgatattgtctttggatattg
ctacgatcaacgtgttaacgattgggaatccgcgtgtgaaagtggatggaattgcgctaa
actttcgccgagcttgagctttttcgccaaattttccagtgttaaagaggtctcgtgtct
cctcgcgtgcacccgccgtgcactcacctacccactctaccgtagcttccaactcacgca
acgtgtcattcaggacgtttgccacgtcatcaccgccggcggtggccgtcccgccctcct
gcacattctatgcgatttacaccgaattttcatcgaatccggagaatttcgctacatttt
gaacgatttaatgattgccgactacattttctggattcaaactgtgcccgacgagattct
gacgcgaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTTCTGACGAAGACCGCACCAAA 41 429 1308 Antisense
AATTGCGCTAAACTTTCGCCGAGCT 603 177 1477 Antisense
TTTCGCCGAGCTTGAGCTTTTTCGC 636 669 1490 Antisense
GCTTTTTCGCCAAATTTTCCAGTGT 610 303 1505 Antisense
TTAAAGAGGTCTCGTGTCTCCTCGC 123 685 1529 Antisense
GTGTCATTCAGGACGTTTGCCACGT 642 485 1610 Antisense
CCTCCTGCACATTCTATGCGATTTA 214 267 1662 Antisense
TACACCGAATTTTCATCGAATCCGG 319 641 1685 Antisense
GATTGCCGACTACATTTTCTGGATT 671 433 1740 Antisense
TTTCTGGATTCAAACTGTGCCCGAC 211 671 1755 Antisense
TGCCCGACGAGATTCTGACGCGAAT 313 585 1772 Antisense
Sequence Source Affymetrix Proprietary Database