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[192639_s_at] Yeast hypothetical protein YER2 like

Description F28D1.1 /REP_DB=WormBase Gene ID /WP=CE05741 /TR=Q19873 /GB=CAA94597.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Yeast hypothetical protein YER2 like
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 76      4grp_highest_8_8 > 21      4grp_high_8_8 > 23      6grp_highest_nonorm > 93      6grp_total > 67      4grp_total > 08      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 416
1 2 3 4 range
A 584.1
(-0.1)
P 		532.6
(-3)
P 		624
(2.2)
P 		637.9
(3)
P 		105
B 451
(-3)
P 		492.4
(-2.2)
P 		675
(1.4)
P 		757
(3)
P 		306
C 521
(-3)
P 		577.4
(-2)
P 		688.1
(-0.1)
P 		867
(3)
P 		346
avr 518.7
(-3) 		534.1
(-2.6) 		662.4
(0.7) 		754
(3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 755
1 2 3 4 5 6 range
A 345.3
(-3)
P 		391.8
(-2)
P 		344.5
(-3)
P 		395.5
(-1.9)
P 		400
(-1.8)
P 		626.5
(3)
P 		282
B 374.1
(-3)
P 		418.2
(-2.6)
P 		426.2
(-2.6)
P 		389.9
(-2.9)
P 		458.2
(-2.3)
P 		1085.8
(3)
P 		712
C 388.6
(-2.1)
P 		461.9
(-0.9)
P 		331.3
(-3)
P 		366.1
(-2.4)
P 		353.1
(-2.6)
P 		704.3
(3)
P 		373
avr 369.3
(-3) 		424
(-2.2) 		367.3
(-3) 		383.8
(-2.8) 		403.8
(-2.5) 		805.5
(3) 		438
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 212.7
(3)
P 		115.6
(-1.9)
P 		163.1
(0.5)
P 		93.4
(-3)
P 		119
B 143.8
(0.4)
P 		121.6
(-3)
P 		156.4
(2.3)
P 		161.3
(3)
P 		40
C 172.5
(-1.3)
P 		166
(-1.7)
P 		239.8
(3)
P 		146.2
(-3)
P 		94
avr 176.3
(1.9) 		134.4
(-2.9) 		186.4
(3) 		133.6
(-3) 		53

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 341
1 2 3 4 5 6 range
A 63.7
(-3)
P 		139.3
(2.1)
P 		75
(-2.2)
P 		100.3
(-0.5)
P 		120.7
(0.9)
P 		152.5
(3)
P 		89
B 130.2
(-2.5)
P 		139.2
(-2.3)
P 		103.5
(-3)
P 		103.3
(-3)
P 		186.2
(-1.4)
P 		404.9
(3)
P 		302
C 144
(-0.4)
P 		140.9
(-0.5)
P 		84.3
(-2.6)
P 		73.6
(-3)
P 		114.2
(-1.5)
P 		235.8
(3)
P 		162
avr 112.6
(-2.2) 		139.8
(-1.2) 		87.6
(-3) 		92.4
(-2.8) 		140.4
(-1.2) 		264.4
(3) 		177
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192639_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9286
Sequence Type Exemplar sequence
Representative Public ID F28D1.1 NCBI
Target Description F28D1.1 /REP_DB=WormBase Gene ID /WP=CE05741 /TR=Q19873 /GB=CAA94597.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Yeast hypothetical protein YER2 like
Cluster Evidence This cluster is supported by a 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_069957(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069957 NCBI Caenorhabditis elegans F28D1.1 (F28D1.1) mRNA, complete cds. 11/11 None
SNAP00000029690 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12372224:12374648:1 11/11 None
GENEFINDER00000029711 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12372224:12374648:1 11/11 None
F28D1.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:12372220:12374877:1 gene:F28D1.1 11/11 None
F28D1.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:12372222:12374877:1 gene:F28D1.1 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:12372229-12374654(+) 100.0 100.0
Public Domain and Genome References
Gene Title Yeast hypothetical protein YER2 like
Ensembl F28D1.1
Entrez Gene 178185 Entrez gene
SwissProt Q19873 EMBL-EBI
WormBase CE05741 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258965_AT transducin family protein / WD-40 repeat family protein at
CANINE_2:CFA.21474.1.S1_S_AT similar to WD-repeat protein BING4 cfa
CANINE_2:CFAAFFX.2339.1.S1_AT similar to WD-repeat protein BING4 cfa
DROSOPHILA_2:1636433_AT dm
DROSGENOME1:154955_AT dm
HG-U133_PLUS_2:209196_AT WD repeat domain 46 hs
HG-U133A:209196_AT WD repeat domain 46 hs
HG-FOCUS:209196_AT WD repeat domain 46 hs
HG-U133A_2:209196_AT WD repeat domain 46 hs
HU35KSUBB:RC_Z39063_S_AT WD repeat domain 46 hs
U133_X3P:G12653238_3P_X_AT WD repeat domain 46 hs
U133_X3P:G12653238_3P_AT WD repeat domain 46 hs
HG-U95AV2:33250_AT WD repeat domain 46 hs
MOE430A:1422709_A_AT WD repeat domain 46 mm
MOUSE430A_2:1422709_A_AT WD repeat domain 46 mm
MOUSE430_2:1422709_A_AT WD repeat domain 46 mm
MOE430B:1437828_S_AT WD repeat domain 46 mm
MOUSE430_2:1437828_S_AT WD repeat domain 46 mm
MU11KSUBA:AA259645_S_AT WD repeat domain 46 mm
MG-U74AV2:104702_AT WD repeat domain 46 mm
MU19KSUBA:TC21124_AT WD repeat domain 46, mRNA (cDNA clone IMAGE:4235286) mm
RAE230A:1374152_AT WD repeat domain 46 rn
RAT230_2:1374152_AT WD repeat domain 46 rn
YEAST_2:1777602_AT Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA Sc
Protein Similarities
Method ID Description E-Value
blast CAA94597 Hypothetical protein F28D1.1 [Caenorhabditis elegans] ref|NP_502358.1| F28D1.1 [Caenorhabditis elegans] 0.0
blast CAE59846 Hypothetical protein CBG03319 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 7.4E-8
Sequence
Target Sequence 
>C. ELEGANS:192639_S_AT
gtgtcgaacgtggcaatttctcaaaaaatgaacgttgcctgtgcagttggaaaccatgta
caagtgttccgtggaatgcataatgggacgtgtaaagagccgtatttggtgcacaattgt
ggaggtgtggtcactgatttacgatttgttccatgggaagatgtgctcggaattggacac
gcaggcggattcacgagtatgttggtgccaggggcaggagatccgaacgttgatacgctc
agatctaatccgtacgaaacgaaatcacagagaaaggaaagagaaatcaaacaattgttg
gataagattcaaccggagctcatcagtcttaacccagacgacattaacaaggtcaatgag
ggacttctcgagttggaagaggaagaacgaaagaagattctctacattcgtccgatggct
gttcaatatacgccacgtcacaagatgcgcagcaagaagagtggttggaagatggaggct
cgtaagaatattgtcaaggatcagattcgaatggaacggaatatggagaaacatgcggtg
gagaaggaagtttttgaagcaccggaagtggatgacgaggctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTCGAACGTGGCAATTTCTCAAA 9 487 1138 Antisense
GAACGTTGCCTGTGCAGTTGGAAAC 613 347 1167 Antisense
GGTCACTGATTTACGATTTGTTCCA 268 503 1266 Antisense
GACACGCAGGCGGATTCACGAGTAT 380 367 1313 Antisense
GGAGATCCGAACGTTGATACGCTCA 293 519 1354 Antisense
GATACGCTCAGATCTAATCCGTACG 637 423 1369 Antisense
TCAACCGGAGCTCATCAGTCTTAAC 485 631 1446 Antisense
AGAAGATTCTCTACATTCGTCCGAT 127 75 1529 Antisense
TTCGTCCGATGGCTGTTCAATATAC 71 693 1544 Antisense
GCCACGTCACAAGATGCGCAGCAAG 670 279 1569 Antisense
GCACCGGAAGTGGATGACGAGGCTC 479 313 1696 Antisense
Sequence Source Affymetrix Proprietary Database