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[187467_s_at]

Description Y46G5A.4 /REP_DB=WormBase Gene ID /WP=CE21971 /TR=SW:Q9U2G0 /GB=CAB60351.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 38      4grp_highest_8_8 > 40      4grp_high_8_8 > 43      6grp_highest_nonorm > 50      6grp_total > 27      4grp_total > 53      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 564
1 2 3 4 range
A 943.1
(3)
P 		814.9
(1.4)
P 		576.1
(-1.5)
P 		449.8
(-3)
P 		493
B 851.5
(3)
P 		749.8
(1.5)
P 		551.6
(-1.5)
P 		449.4
(-3)
P 		402
C 803.6
(2.4)
P 		854.9
(3)
P 		794.3
(2.2)
P 		378.9
(-3)
P 		476
avr 866.1
(3) 		806.5
(2.2) 		640.7
(-0.1) 		426
(-3) 		440

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 836
1 2 3 4 5 6 range
A 615.6
(2.1)
P 		620.1
(2.2)
P 		359.9
(-2.9)
P 		356.6
(-3)
P 		375.3
(-2.6)
P 		662.7
(3)
P 		306
B 717.9
(3)
P 		505
(-0.5)
P 		540.8
(0.1)
P 		452.2
(-1.3)
P 		349
(-3)
P 		547.1
(0.2)
P 		369
C 1100.1
(3)
P 		462.2
(-1.6)
P 		400.7
(-2)
P 		264.5
(-3)
P 		528.1
(-1.1)
P 		485
(-1.4)
P 		836
avr 811.2
(3) 		529.1
(-0.7) 		433.8
(-2) 		357.8
(-3) 		417.5
(-2.2) 		564.9
(-0.3) 		453
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 280
1 2 3 4 range
A 343.4
(3)
P 		176.9
(-0.6)
P 		150.6
(-1.2)
P 		65.8
(-3)
P 		278
B 271.5
(3)
P 		185.2
(0.1)
P 		127.8
(-1.9)
P 		95.8
(-3)
P 		176
C 266
(2.7)
P 		245.8
(2.1)
P 		276.8
(3)
P 		63.9
(-3)
P 		213
avr 293.6
(3) 		202.6
(0.5) 		185.1
(0) 		75.2
(-3) 		218

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 355
1 2 3 4 5 6 range
A 113.5
(-1.5)
P 		220.5
(3)
P 		78.4
(-3)
P 		90.5
(-2.5)
P 		113.3
(-1.5)
P 		161.3
(0.5)
P 		142
B 249.8
(3)
P 		168.1
(-0.8)
P 		131.3
(-2.5)
P 		119.8
(-3)
P 		141.8
(-2)
P 		204
(0.9)
P 		130
C 407.7
(3)
P 		141
(-1.5)
P 		102
(-2.2)
P 		53.2
(-3)
P 		170.9
(-1)
P 		162.4
(-1.2)
P 		355
avr 257
(3) 		176.5
(0.1) 		103.9
(-2.4) 		87.8
(-3) 		142
(-1.1) 		175.9
(0.1) 		169
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187467_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3437
Sequence Type Exemplar sequence
Representative Public ID Y46G5A.4 NCBI
Target Description Y46G5A.4 /REP_DB=WormBase Gene ID /WP=CE21971 /TR=SW:Q9U2G0 /GB=CAB60351.1 /SUBMIT=HINXTON /CHR=2 /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_064309(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064309 NCBI Caenorhabditis elegans Y46G5A.4 (Y46G5A.4) mRNA, complete cds. 11/11 None
SNAP00000038987 ENSEMBL cdna:SNAP chromosome:CEL140:II:12727203:12736771:-1 11/11 None
GENEFINDER00000039025 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12727203:12736771:-1 11/11 None
Y46G5A.4 ENSEMBL cdna:known chromosome:CEL140:II:12726855:12736771:-1 gene:Y46G5A.4 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
chrII:12727199-12736768(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y46G5A.4
Entrez Gene 174901 Entrez gene
SwissProt Q9U2G0 EMBL-EBI
WormBase CE21971 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262800_AT U5 small nuclear ribonucleoprotein helicase, putative at
ATGENOME1:12370_AT U5 small nuclear ribonucleoprotein helicase, putative at
CANINE:1583781_S_AT similar to activating signal cointegrator 1 complex subunit 3-like 1 cfa
CANINE_2:CFA.4057.1.A1_AT similar to activating signal cointegrator 1 complex subunit 3-like 1 cfa
CANINE_2:CFAAFFX.11053.1.S1_S_AT similar to activating signal cointegrator 1 complex subunit 3-like 1 cfa
CANINE_2:CFAAFFX.11072.1.S1_S_AT similar to activating signal cointegrator 1 complex subunit 3-like 1 cfa
CANINE_2:CFAAFFX.11077.1.S1_AT similar to activating signal cointegrator 1 complex subunit 3-like 1 cfa
DROSOPHILA_2:1625343_AT dm
DROSGENOME1:153263_AT dm
PLASMODIUM_ANOPHELES:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133B:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133_PLUS_2:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-FOCUS:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133A_2:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133A:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:200058_S_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133_PLUS_2:217114_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133A_2:217114_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133A:217114_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U95AV2:31593_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HU35KSUBA:RC_AA504801_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HU35KSUBA:AA261884_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HU35KSUBB:RC_T96407_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:G12655128_3P_A_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:HS.306592.0.S1_3P_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:HS.197800.0.S1_3P_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133A_2:214982_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133_PLUS_2:214982_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133A:214982_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U95AV2:41224_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U95B:47994_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U95E:68805_F_AT activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133_PLUS_2:232931_AT Activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U133B:232931_AT Activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:HS.288494.0.S1_3P_X_AT Activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:HS.288494.0.S1_3P_AT Activating signal cointegrator 1 complex subunit 3-like 1 hs
U133_X3P:232931_3P_AT Activating signal cointegrator 1 complex subunit 3-like 1 hs
HG-U95E:80103_AT Activating signal cointegrator 1 complex subunit 3-like 1 hs
MOE430B:1460552_AT activating signal cointegrator 1 complex subunit 3-like 1 mm
MOUSE430_2:1460552_AT activating signal cointegrator 1 complex subunit 3-like 1 mm
MG-U74BV2:106653_AT MKIAA0788 protein mm
MOE430B:1454772_AT MKIAA0788 protein mm
MOUSE430_2:1454772_AT MKIAA0788 protein mm
MU19KSUBC:TC40515_AT MKIAA0788 protein mm
RG-U34C:RC_AI178975_AT similar to U5 snRNP-specific protein, 200 kDa rn
RAE230A:1388354_AT similar to U5 snRNP-specific protein, 200 kDa rn
RAT230_2:1388354_AT similar to U5 snRNP-specific protein, 200 kDa rn
YEAST_2:1770228_AT RNA-dependent ATPase RNA helicase involved in the facilitation and disruption of snRNA interactions, required for disruption of U4/U6 base-pairing in native snRNPs to activate the spliceosome for catalysis Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9307 DNA restriction-modification system inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
15668 type III site-specific deoxyribonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60351 Hypothetical protein Y46G5A.4 [Caenorhabditis elegans] ref|NP_496710.1| Y46G5A.4 [Caenorhabditis elegans] sp|Q9U2G0|U520_CAEEL Putative U5 small nuclear ribonucleoprotein 200 kDa helicase 0.0
blast CAE63450 Hypothetical protein CBG07909 [Caenorhabditis briggsae] 0.0
blast XP_685958 PREDICTED: similar to activating signal cointegrator 1 complex subunit 3-like 1 isoform 1 [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 4.9E-11
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.8E-43
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 9.3E-34
Pfam IPR004179 EMBL-EBI Sec63 domain 1.0E-126
Pfam IPR004179 EMBL-EBI Sec63 domain 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:187467_S_AT
acgcgatggagctctcacagatgctcacacaggcgatgtactcgaatgagccgtacttga
agcagttaccgcattgttcggcggctcttctcgaacgagcaaaagctaaagaggtcacat
ctgtctttgagcttctcgagctggaaaacgacgatcgatcggatattctgcaaatggagg
gagccgagctggccgatgtggcacgattctgcaatcattatccatcgattgaggtggcca
cagagcttgagaacgacgtggtgacgagcaacgataatctgatgttggctgtttcactgg
aacgagacaatgatattgatggactcgcaccgcccgtcgtcgcaccattgttcccgcaga
aacgaaaggaagagggatggtggttggttattggagattccgaatccaatgcattgttga
ctattaaaagacttgtgatcaacgaaaagtcgtcggttcagttggactttgccgctccac
gacccgggcaccacaaattcaagctcttcttcatctcggactcgtacctcggcgcggatc
aggaattcgacgtcgccttcaaggttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGCGATGGAGCTCTCACAGATGCT 534 91 5831 Antisense
GATGCTCACACAGGCGATGTACTCG 704 413 5850 Antisense
GAGCCGTACTTGAAGCAGTTACCGC 587 385 5878 Antisense
AGGTCACATCTGTCTTTGAGCTTCT 31 59 5942 Antisense
GAGCTGGCCGATGTGGCACGATTCT 219 387 6016 Antisense
GGTGGCCACAGAGCTTGAGAACGAC 441 499 6063 Antisense
ATGATATTGATGGACTCGCACCGCC 580 45 6140 Antisense
GTCGGTTCAGTTGGACTTTGCCGCT 601 471 6282 Antisense
GGCACCACAAATTCAAGCTCTTCTT 87 537 6317 Antisense
CGGCGCGGATCAGGAATTCGACGTC 76 241 6360 Antisense
AATTCGACGTCGCCTTCAAGGTTGA 695 175 6374 Antisense
Sequence Source Affymetrix Proprietary Database