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[173108_at]

Description AV175918_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV175918 /DEF=Caenorhabditis elegans cDNA clone:yk498f7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 79      4grp_highest_8_8 > 18      4grp_high_8_8 > 63      6grp_highest_nonorm > 95      6grp_total > 89      4grp_total > 56      6grp_highest_sub > Cu      6grp_high1_sub > Cu      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 496
1 2 3 4 range
A 894.6
(-0.8)
P 		931.8
(0.3)
P 		1020.4
(3)
P 		823.7
(-3)
P 		197
B 763.6
(-3)
P 		965.9
(-0.6)
P 		1259.5
(3)
P 		776.1
(-2.8)
P 		496
C 874.9
(-0.3)
P 		987.4
(2.7)
P 		997.5
(3)
P 		777.6
(-3)
P 		220
avr 844.4
(-2) 		961.7
(0.4) 		1092.5
(3) 		792.5
(-3) 		300

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 587
1 2 3 4 5 6 range
A 502.2
(-3)
P 		607.7
(-1.9)
P 		703.4
(-0.9)
P 		707.8
(-0.9)
P 		764.7
(-0.3)
P 		1083.4
(3)
P 		581
B 621.1
(-2.5)
P 		615.9
(-2.6)
P 		643.5
(-2.2)
P 		589.2
(-3)
P 		943.9
(2)
P 		1013.5
(3)
P 		424
C 969
(2.9)
P 		708.3
(-0.3)
P 		556.8
(-2.2)
P 		496.2
(-3)
P 		920.1
(2.3)
P 		976.1
(3)
P 		480
avr 697.4
(-1.6) 		644
(-2.3) 		634.6
(-2.5) 		597.7
(-3) 		876.2
(0.9) 		1024.3
(3) 		427
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 227
1 2 3 4 range
A 325.7
(3)
P 		202.3
(-0.6)
P 		266.7
(1.3)
P 		120.6
(-3)
P 		205
B 243.5
(0.7)
P 		238.6
(0.5)
P 		291.9
(3)
P 		165.4
(-3)
P 		127
C 289.6
(1.4)
P 		283.9
(1.2)
P 		347.7
(3)
P 		131.1
(-3)
P 		217
avr 286.3
(2.4) 		241.6
(0.8) 		302.1
(3) 		139
(-3) 		163

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 291
1 2 3 4 5 6 range
A 92.6
(-3)
P 		216.1
(1.3)
P 		153.2
(-0.9)
P 		179.5
(0)
P 		230.8
(1.8)
P 		263.8
(3)
P 		171
B 216.1
(-1.4)
P 		205
(-1.7)
P 		156.2
(-3)
P 		156.1
(-3)
P 		383.5
(3)
P 		377.9
(2.9)
P 		227
C 359.2
(3)
P 		216.1
(-0.3)
P 		141.7
(-2)
P 		99.8
(-3)
P 		297.7
(1.6)
P 		326.7
(2.2)
P 		259
avr 222.6
(-0.4) 		212.4
(-0.7) 		150.4
(-2.8) 		145.1
(-3) 		304
(2.4) 		322.8
(3) 		178
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173108_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27032
Sequence Type Exemplar sequence
Representative Public ID AV175918 NCBI
Target Description AV175918_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV175918 /DEF=Caenorhabditis elegans cDNA clone:yk498f7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_058522(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058522 NCBI Caenorhabditis elegans Y37E3.3 (Y37E3.3) mRNA, complete cds. 10/11 None
Y37E3.3 ENSEMBL cdna:known chromosome:CEL140:I:2064302:2064690:1 gene:Y37E3.3 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000001185 7/11 Cross Hyb Matching Probes None
GENEFINDER00000001223 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:2064301-2064626(+) 91.0 91.0
Public Domain and Genome References
Gene Title
Ensembl Y37E3.3
Entrez Gene 171763 Entrez gene
SwissProt Q9GR61 EMBL-EBI
WormBase CE26662 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSGENOME1:150520_AT dm
DROSOPHILA_2:1638166_AT dm
HG-U95AV2:503_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HC-G110:503_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U133_PLUS_2:211730_S_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U133A:211730_S_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U133A_2:211730_S_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HUGENEFL:U37690_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
U133_X3P:G13543491_3P_S_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
U133_X3P:HS.71618.0.S2_3P_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U133A_2:202586_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-FOCUS:202586_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U133_PLUS_2:202586_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U133A:202586_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U95AV2:35841_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
HG-U95E:78238_AT polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa hs
YEAST_2:1776267_AT RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6350 transcription inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3899 DNA-directed RNA polymerase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_490923 Y37E3.3 [Caenorhabditis elegans] gb|AAK27863.1| Hypothetical protein Y37E3.3 [Caenorhabditis elegans] sp|Q9GR61|RPB10_CAEEL DNA-directed RNA polymerase II 7.6 kDa polypeptide (RPB10) (RPB7.6) emb|CAE74334.1| Hypothetical protein CBG22047 [Caenorhabditis briggsae] 5.0E-34
blast XP_790633 PREDICTED: similar to DNA-directed RNA polymerase II 7.6 kDa polypeptide (RPB10) (RPB7.6) (RPABC5) [Strongylocentrotus purpuratus] 5.0E-30
blast NP_001016343 hypothetical protein LOC549097 [Xenopus tropicalis] ref|NP_066951.1| DNA directed RNA polymerase II polypeptide L [Homo sapiens] gb|AAS59418.1| RNA polymerase polypeptide L [Chinchilla lanigera] dbj|BAE28747.1| unnamed protein product [Mus musculus] dbj|BAE40122.1| unnamed protein product [Mus musculus] emb|CAG38802.1| POLR2L [Homo sapiens] dbj|BAB27338.1| unnamed protein product [Mus musculus] gb|AAH05903.1| DNA directed RNA polymerase II polypeptide L [Homo sapiens] gb|AAH97791.1| Unknown (protein for MGC:115502) [Xenopus laevis] gb|AAX42106.1| polymerase II polypeptide L [synthetic construct] sp|P62876|RPB10_MOUSE DNA-directed RNA polymerase II 7.6 kDa polypeptide (RPB10) (RPB7.6) (RPABC5) gb|AAH18649.1| DNA directed RNA polymerase II polypeptide L [Homo sapiens] sp|Q6QN04|RPB10_CHILA DNA-directed RNA polymerase II 7.6 kDa polypeptide (RPB10) (RPB7.6) (RPABC5) sp|P62875|RPB10_HUMAN DNA-directed RNA polymerase II 7.6 kDa polypeptide (RPB10) (RPB7.6) (RPABC5) gb|AAA91459.1| RNA polymerase II subunit prf||2208312A RNA polymerase:SUBUNIT=7.6kD 1.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR000268 EMBL-EBI RNA polymerases N/8 Kd subunits 1.3E-33
Sequence
Target Sequence 
>C. ELEGANS:173108_AT
cggcacgagacaagatgattatcccaatcagatgcttnacatgcggcaaagtcatcggcg
acaagtgggagacgtatctcggattcttgcagtcggaatacagtgaaggagatgctctng
acgcgctcggttttcgtcgntactgttgccgaagaatgcttctggctcacgtggatctca
tcgagaagcttntcaactaccatccgctggaaaagtaatcggagcccctttcaattgttg
ttgttt

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
CGGCACGAGACAAGATGATTATCCC 556 241 30 Antisense
AGATGATTATCCCAATCAGATGCTT 553 67 42 Antisense
ACATGCGGCAAAGTCATCGGCGACA 290 107 68 Antisense
ATCGGCGACAAGTGGGAGACGTATC 136 1 83 Antisense
GAGACGTATCTCGGATTCTTGCAGT 10 395 98 Antisense
GGATTCTTGCAGTCGGAATACAGTG 103 509 110 Antisense
CCGAAGAATGCTTCTGGCTCACGTG 465 263 178 Antisense
GGCTCACGTGGATCTCATCGAGAAG 160 539 193 Antisense
TCAACTACCATCCGCTGGAAAAGTA 650 625 222 Antisense
GCTGGAAAAGTAATCGGAGCCCCTT 55 293 235 Antisense
GAGCCCCTTTCAATTGTTGTTGTTT 461 381 251 Antisense
Sequence Source Affymetrix Proprietary Database