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[191236_s_at] RNA helicase

Description B0414.6 /REP_DB=WormBase Gene ID /WP=CE07736 /GEN=glh-3 /TR=SW:O01836 /GB=AAB57719.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA helicase
Cluster 6grp_total > 86      4grp_total > 0      6grp_cgc > 58      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 55.4
(-0.5)
A 		20.6
(-3)
A 		59.2
(-0.3)
A 		105.5
(3)
A 		85
B 59.5
(0.9)
A 		65.4
(1.5)
A 		79.3
(3)
A 		23.5
(-3)
A 		56
C 69.6
(-1.7)
A 		56.8
(-3)
A 		90.6
(0.4)
A 		117.2
(3)
M 		60
avr 61.5
(-0.6) 		47.6
(-3) 		76.4
(2) 		82.1
(3) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 280
1 2 3 4 5 6 range
A 12.6
(-3)
A 		35.5
(-2.5)
A 		92.8
(-1.3)
A 		148.4
(-0.1)
P 		122.9
(-0.6)
P 		292.1
(3)
P 		280
B 20.4
(-3)
A 		36.5
(-2.5)
A 		45
(-2.2)
A 		60.3
(-1.6)
A 		141.7
(1.1)
P 		197.6
(3)
P 		177
C 61.9
(-3)
A 		70.5
(-2.7)
A 		151.8
(0.1)
A 		102.8
(-1.6)
A 		148.9
(0)
P 		233.4
(3)
P 		172
avr 31.6
(-3) 		47.5
(-2.5) 		96.5
(-1.1) 		103.8
(-0.9) 		137.8
(0) 		241
(3) 		209
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 20.2
(3)
A 		4.5
(-3)
A 		15.5
(1.2)
A 		15.4
(1.2)
A 		16
B 19
(3)
A 		16.1
(1.8)
A 		18.4
(2.7)
A 		5
(-3)
A 		14
C 23
(-0.4)
A 		16.3
(-3)
A 		31.6
(3)
A 		19.8
(-1.6)
M 		15
avr 20.7
(2.3) 		12.3
(-3) 		21.8
(3) 		13.4
(-2.3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 2.3
(-3)
A 		12.6
(-2.1)
A 		20.2
(-1.4)
A 		37.6
(0.1)
P 		37.1
(0)
P 		71.1
(3)
P 		69
B 7.1
(-3)
A 		12.2
(-2.5)
A 		10.9
(-2.7)
A 		16
(-2.2)
A 		57.6
(1.5)
P 		73.7
(3)
P 		67
C 22.9
(-2.8)
A 		21.5
(-2.9)
A 		38.6
(-1.1)
A 		20.7
(-3)
A 		48.2
(-0.1)
P 		78.1
(3)
P 		57
avr 10.8
(-3) 		15.4
(-2.6) 		23.2
(-1.8) 		24.8
(-1.7) 		47.6
(0.5) 		74.3
(3) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191236_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1335
Sequence Type Exemplar sequence
Representative Public ID B0414.6 NCBI
Target Description B0414.6 /REP_DB=WormBase Gene ID /WP=CE07736 /GEN=glh-3 /TR=SW:O01836 /GB=AAB57719.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA helicase
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_059280(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059280 NCBI Caenorhabditis elegans Germ-Line Helicase family member (glh-3) (glh-3) mRNA, complete cds. 11/11 None
SNAP00000011713 ENSEMBL cdna:SNAP chromosome:CEL140:I:5800717:5803177:-1 11/11 None
GENEFINDER00000011720 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5800717:5803177:-1 11/11 None
B0414.6 ENSEMBL cdna:known chromosome:CEL140:I:5800460:5803250:-1 gene:B0414.6 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:5800716-5803177(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA helicase
Gene Symbol glh-3
Ensembl B0414.6
Entrez Gene 172245 Entrez gene
SwissProt O01836 EMBL-EBI
WormBase CE07736 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
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
Protein Similarities
Method ID Description E-Value
blast AAB57719 Germ-line helicase protein 3 [Caenorhabditis elegans] ref|NP_491681.1| Germ-Line Helicase family member (glh-3) [Caenorhabditis elegans] gb|AAC28388.1| germline RNA helicase-3 [Caenorhabditis elegans] sp|O01836|GLH3_CAEEL ATP-dependent RNA helicase glh-3 (Germline helicase 3) 0.0
blast AAB03510 GLH-2 [Caenorhabditis elegans] gb|AAB03337.1| RNA helicase GLH-2 [Caenorhabditis elegans] 0.0
blast NP_491876 Germ-Line Helicase family member (glh-2) [Caenorhabditis elegans] gb|AAK68269.1| Germ-line helicase protein 2 [Caenorhabditis elegans] sp|Q966L9|GLH2_CAEEL ATP-dependent RNA helicase glh-2 (Germline helicase 2) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 4.4E-6
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 5.4E-34
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 5.3E-75
Sequence
Target Sequence 
>C. ELEGANS:191236_S_AT
ggagccgccaacaaatgtgtcattcaagagttcgagttgtgcgatagaacatcaaaagtg
gataagcttttgaagcttctcggtatcgatattgacacctacaccaccgagaaaaattct
gatgtctttgtgaagaaaacgattgtattcgttgctcaacaaaaaatggcagacactctg
gccagtatcatgtcggcagcccaagttccagcgattacaattcacggtgctcgcgagcaa
aaagaacggtcggctgctttgaaattgttccgaagtggagctaagccagtgctcatcgcc
acggctgttgttgagcgtggtcttgacattaaaggtgtagatcatgttattaactacgac
atgccaaataacattgatgattatatccatcgaattggccgaactggacgagtcggaaac
tcgggaagagcaactagcttcatatcattggcagacgatgttcaaattctgccgcagttg
gtgcgaactctagctgacgccgaacaagttgtgccaagctggatgaaggaagctgcagga
gggacctccaatcctaataaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCCGCCAACAAATGTGTCATTC 580 521 1570 Antisense
GCTTTTGAAGCTTCTCGGTATCGAT 560 303 1635 Antisense
TATCGATATTGACACCTACACCACC 441 659 1653 Antisense
GCAGACACTCTGGCCAGTATCATGT 561 311 1738 Antisense
GTATCATGTCGGCAGCCCAAGTTCC 35 453 1754 Antisense
CGGTCGGCTGCTTTGAAATTGTTCC 671 243 1816 Antisense
TGGAGCTAAGCCAGTGCTCATCGCC 133 549 1845 Antisense
GGCTGTTGTTGAGCGTGGTCTTGAC 14 541 1872 Antisense
GTTGGTGCGAACTCTAGCTGACGCC 549 435 2046 Antisense
AGCTGACGCCGAACAAGTTGTGCCA 249 81 2061 Antisense
GGAGGGACCTCCAATCCTAATAAAT 131 517 2107 Antisense
Sequence Source Affymetrix Proprietary Database