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[187650_s_at]

Description Y87G2A.10 /REP_DB=WormBase Gene ID /WP=CE23139 /TR=SW:Q9NA26 /GB=CAB54493.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 36      6grp_high1_10_10 > 63      4grp_highest_8_8 > 04      4grp_high_8_8 > 38      6grp_highest_nonorm > 66      6grp_total > 64      4grp_total > 34      6grp_highest_sub > 03      6grp_high1_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 262
1 2 3 4 range
A 1386.7
(-0.4)
P 		1478.5
(3)
P 		1365.4
(-1.2)
P 		1318.6
(-3)
P 		160
B 1323.3
(-3)
P 		1506.8
(2)
P 		1537.2
(2.9)
P 		1541.8
(3)
P 		219
C 1280.3
(-3)
P 		1514.7
(2.9)
P 		1405.9
(0.1)
P 		1520.4
(3)
P 		240
avr 1330.1
(-3) 		1500
(3) 		1436.2
(0.7) 		1460.3
(1.6) 		170

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 916
1 2 3 4 5 6 range
A 1461.2
(-2.4)
P 		1469.6
(-2.4)
P 		2275.4
(3)
P 		1777.4
(-0.3)
P 		1378.3
(-3)
P 		1532.7
(-2)
P 		897
B 1622
(1.2)
P 		1612.4
(0.7)
P 		1653.2
(3)
P 		1611.5
(0.6)
P 		1548
(-3)
P 		1594.2
(-0.4)
P 		105
C 1377.4
(-2.8)
P 		1521.3
(-1.2)
P 		1624.7
(-0.1)
P 		1901.1
(3)
P 		1359.8
(-3)
P 		1757.9
(1.4)
P 		541
avr 1486.9
(-2.2) 		1534.4
(-1.5) 		1851.1
(3) 		1763.3
(1.8) 		1428.7
(-3) 		1628.3
(-0.2) 		422
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 312
1 2 3 4 range
A 504.9
(3)
P 		321
(-0.5)
P 		356.9
(0.2)
P 		193
(-3)
P 		312
B 422
(3)
P 		372.2
(-0.2)
P 		356.2
(-1.2)
P 		328.6
(-3)
P 		93
C 423.8
(1.3)
P 		435.5
(1.6)
P 		490
(3)
P 		256.4
(-3)
P 		234
avr 450.2
(3) 		376.2
(0.7) 		401
(1.5) 		259.3
(-3) 		191

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 360
1 2 3 4 5 6 range
A 269.4
(-3)
P 		522.7
(3)
P 		495.5
(2.4)
P 		450.8
(1.3)
P 		415.9
(0.5)
P 		373.2
(-0.5)
P 		253
B 564.4
(1.3)
P 		536.7
(0.6)
P 		401.4
(-3)
P 		426.8
(-2.3)
P 		628.9
(3)
P 		594.5
(2.1)
P 		228
C 510.5
(0.7)
P 		464.2
(-0.6)
P 		413.5
(-2.1)
P 		382.3
(-3)
P 		440
(-1.3)
P 		588.5
(3)
P 		206
avr 448.1
(-1.3) 		507.9
(2.3) 		436.8
(-2) 		420
(-3) 		494.9
(1.6) 		518.7
(3) 		99
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187650_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.733
Sequence Type Exemplar sequence
Representative Public ID Y87G2A.10 NCBI
Target Description Y87G2A.10 /REP_DB=WormBase Gene ID /WP=CE23139 /TR=SW:Q9NA26 /GB=CAB54493.1 /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_060981(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060981 NCBI Caenorhabditis elegans Y87G2A.10 (Y87G2A.10) mRNA, complete cds. 11/11 None
SNAP00000019591 ENSEMBL cdna:SNAP chromosome:CEL140:I:13580159:13596943:-1 10/11 None
GENEFINDER00000019605 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13594387:13596943:-1 11/11 None
Y87G2A.10.1 ENSEMBL cdna:known chromosome:CEL140:I:13594338:13596952:-1 gene:Y87G2A.10 11/11 None
Y87G2A.10.2 ENSEMBL cdna:known chromosome:CEL140:I:13594387:13596950:-1 gene:Y87G2A.10 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
chrI:13594317-13596874(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y87G2A.10
Entrez Gene 173229 Entrez gene
SwissProt Q9NA26 EMBL-EBI
WormBase CE23139 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:255253_AT vacuolar protein sorting-associated protein 28 family protein / VPS28 family protein at
CANINE:1605877_AT similar to vacuolar protein sorting 28 cfa
CANINE_2:CFA.1314.1.S1_A_AT similar to vacuolar protein sorting 28 cfa
CANINE_2:CFA.1314.2.S1_S_AT similar to vacuolar protein sorting 28 cfa
DROSOPHILA_2:1637893_AT dm
DROSGENOME1:151970_AT dm
HG-U133_PLUS_2:218679_S_AT vacuolar protein sorting 28 (yeast) hs
HG-U133A:218679_S_AT vacuolar protein sorting 28 (yeast) hs
HG-FOCUS:218679_S_AT vacuolar protein sorting 28 (yeast) hs
HG-U133A_2:218679_S_AT vacuolar protein sorting 28 (yeast) hs
HU35KSUBC:RC_AA431781_AT vacuolar protein sorting 28 (yeast) hs
U133_X3P:G7705884_3P_S_AT vacuolar protein sorting 28 (yeast) hs
HG-U95E:78782_AT vacuolar protein sorting 28 (yeast) hs
HU35KSUBD:RC_C20949_AT Vacuolar protein sorting 28 (yeast) hs
MU11KSUBA:C80335_RC_G_AT vacuolar protein sorting 28 (yeast) mm
MU11KSUBA:C80335_RC_AT vacuolar protein sorting 28 (yeast) mm
MG-U74AV2:96847_AT vacuolar protein sorting 28 (yeast) mm
MOE430A:1448447_AT vacuolar protein sorting 28 (yeast) mm
MOUSE430A_2:1448447_AT vacuolar protein sorting 28 (yeast) mm
MOUSE430_2:1448447_AT vacuolar protein sorting 28 (yeast) mm
MU19KSUBB:TC30857_AT Vacuolar protein sorting 28 (yeast), mRNA (cDNA clone MGC:19216 IMAGE:4239189) mm
MU19KSUBB:TC30858_AT Vacuolar protein sorting 28 (yeast), mRNA (cDNA clone MGC:19216 IMAGE:4239189) mm
MU19KSUBB:TC30858_G_AT Vacuolar protein sorting 28 (yeast), mRNA (cDNA clone MGC:19216 IMAGE:4239189) mm
MU19KSUBB:TC30859_AT Vacuolar protein sorting 28 (yeast), mRNA (cDNA clone MGC:19216 IMAGE:4239189) mm
RG-U34C:RC_AI231071_AT vacuolar protein sorting 28 (yeast) (predicted) rn
RAE230A:1367481_AT vacuolar protein sorting 28 (yeast) (predicted) rn
RAE230B:1367481_AT vacuolar protein sorting 28 (yeast) (predicted) rn
RAT230_2:1367481_AT vacuolar protein sorting 28 (yeast) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB54493 Hypothetical protein Y87G2A.10 [Caenorhabditis elegans] ref|NP_493382.1| Y87G2A.10 [Caenorhabditis elegans] sp|Q9NA26|VPS28_CAEEL VPS28 protein homolog 1.0E-115
blast CAE72593 Hypothetical protein CBG19782 [Caenorhabditis briggsae] 1.0E-106
blast CAB54493 Hypothetical protein Y87G2A.10 [Caenorhabditis elegans] ref|NP_493382.1| Y87G2A.10 [Caenorhabditis elegans] sp|Q9NA26|VPS28_CAEEL VPS28 protein homolog 1.0E-105
blast CAE72593 Hypothetical protein CBG19782 [Caenorhabditis briggsae] 5.0E-99
Protein Domains
Database ID Description E-Value
Pfam IPR007143 EMBL-EBI Vacuolar protein sorting-associated, VPS28 3.3E-126
Pfam IPR007143 EMBL-EBI Vacuolar protein sorting-associated, VPS28 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:187650_S_AT
atttgtccgagctttttgcagttctcaacgctctggagcacttggaaaagatgttcagcc
gtgatcacgtatcagctgatgaatataaatcagaatgcttcaaactaatcgatcaataca
aagtaacaatgcgtctagtgcacggagcaacgagtattgaagatttcgcgaaaaagtatc
gacttcattgtccggctgcaattgaaagaattcgagaaggacgaccgattactgtgaaag
atgatcagggaaatgttctgaaacatattgcgtcgatagtcgagcaattcatcacattcc
tcgatgctctccgtctcaatacccgtgccgttgatgatttgtacccaggacttgatgatc
tttataatgcaattaatacaactagtcgtgtcccaattgatgcaattgtaactacaaaag
tcaaaaaatggcatgatcgtctgtcttcgatggctgcttccgatgagatttcggatgaag
atgctcgtcaaatgatcttcgatgtcgagtctgcctatcaggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTTGTCCGAGCTTTTTGCAGTTCT 149 19 89 Antisense
AAAGATGTTCAGCCGTGATCACGTA 568 121 135 Antisense
AATGCGTCTAGTGCACGGAGCAACG 301 167 216 Antisense
AAGTATCGACTTCATTGTCCGGCTG 625 155 262 Antisense
AATTCATCACATTCCTCGATGCTCT 310 177 374 Antisense
TCTCAATACCCGTGCCGTTGATGAT 420 611 402 Antisense
GCCGTTGATGATTTGTACCCAGGAC 633 281 415 Antisense
AACTAGTCGTGTCCCAATTGATGCA 660 139 468 Antisense
GGCATGATCGTCTGTCTTCGATGGC 573 535 518 Antisense
CGATGGCTGCTTCCGATGAGATTTC 420 247 536 Antisense
TCGATGTCGAGTCTGCCTATCAGGC 231 603 587 Antisense
Sequence Source Affymetrix Proprietary Database