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[171789_x_at]

Description C29696_rc /REP_DB=TREMBL Accession /GB=C29696 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk217c4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 19      6grp_total > 43      4grp_total > 09      6grp_cgc > 91      6grp_high1_sub > 03      6grp_cgc_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17704
1 2 3 4 range
A 22679.1
(-3)
P 		28173.3
(-0.9)
P 		25299.5
(-2)
P 		38298.1
(3)
P 		15619
B 23863
(-2.8)
P 		23620.3
(-3)
P 		26503.1
(-0.6)
P 		30807
(3)
P 		7187
C 20594.3
(-3)
P 		23614.6
(-1.9)
P 		22123.5
(-2.5)
P 		37644.2
(3)
P 		17050
avr 22378.8
(-3) 		25136.1
(-1.7) 		24642
(-2) 		35583.1
(3) 		13204

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8146
1 2 3 4 5 6 range
A 23238.7
(1.4)
P 		19885.2
(-2.6)
P 		24520.5
(3)
P 		19578.4
(-3)
P 		19565.4
(-3)
P 		20527.5
(-1.8)
P 		4955
B 20808.1
(-0.6)
P 		20020.8
(-1.1)
P 		25633
(3)
P 		20130.7
(-1.1)
P 		17487.1
(-3)
P 		18626.4
(-2.2)
P 		8146
C 18630.6
(-3)
P 		20523.2
(3)
P 		20464.8
(2.8)
P 		20172.3
(1.9)
P 		18969.5
(-1.9)
P 		19528.7
(-0.2)
P 		1893
avr 20892.5
(-0.3) 		20143.1
(-1.2) 		23539.4
(3) 		19960.5
(-1.4) 		18674
(-3) 		19560.9
(-1.9) 		4865
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2651
1 2 3 4 range
A 8257.5
(3)
P 		6115.7
(-1.8)
P 		6613.8
(-0.7)
P 		5606.1
(-3)
P 		2651
B 7609.7
(3)
P 		5833.7
(-3)
P 		6141.4
(-2)
P 		6565
(-0.5)
P 		1776
C 6817.3
(-0.9)
P 		6789.3
(-1.1)
P 		7710.7
(3)
P 		6347.4
(-3)
P 		1363
avr 7561.5
(3) 		6246.2
(-2.7) 		6822
(-0.2) 		6172.8
(-3) 		1389

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3184
1 2 3 4 5 6 range
A 4283.9
(-3)
P 		7072.2
(3)
P 		5340
(-0.7)
P 		4965.5
(-1.5)
P 		5904
(0.5)
P 		4997.8
(-1.5)
P 		2788
B 7240.2
(3)
P 		6664.1
(1.2)
P 		6224.5
(-0.2)
P 		5331.9
(-3)
P 		7104.8
(2.6)
P 		6945.7
(2.1)
P 		1908
C 6905.5
(3)
P 		6262.2
(1.6)
P 		5208.6
(-0.6)
P 		4056.7
(-3)
P 		6138.3
(1.4)
P 		6537.4
(2.2)
P 		2849
avr 6143.2
(1.3) 		6666.2
(3) 		5591
(-0.4) 		4784.7
(-3) 		6382.4
(2.1) 		6160.3
(1.4) 		1882
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171789_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27806
Sequence Type Exemplar sequence
Representative Public ID C29696 NCBI
Target Description C29696_rc /REP_DB=TREMBL Accession /GB=C29696 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk217c4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_182444, NM_182443, NM_076922
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F31E3.5.6 ENSEMBL cdna:known chromosome:CEL140:III:6969856:6971643:-1 gene:F31E3.5 A 
SNAP00000009455 ENSEMBL cdna:SNAP chromosome:CEL140:III:6970070:6971611:-1 None
GENEFINDER00000009470 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6970070:6971611:-1 None
SNAP00000030439 ENSEMBL cdna:SNAP chromosome:CEL140:X:7823760:7825206:1 None
GENEFINDER00000030450 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7823760:7825206:1 None
R03G5.1a.3 ENSEMBL cdna:known chromosome:CEL140:X:7823587:7825688:1 gene:R03G5.1 None
R03G5.1a.2 ENSEMBL cdna:known chromosome:CEL140:X:7823588:7825688:1 gene:R03G5.1 None
R03G5.1c.1 ENSEMBL cdna:known chromosome:CEL140:X:7823589:7825708:1 gene:R03G5.1 None
R03G5.1c.3 ENSEMBL cdna:known chromosome:CEL140:X:7823589:7825037:1 gene:R03G5.1 None
R03G5.1c.2 ENSEMBL cdna:known chromosome:CEL140:X:7823593:7825708:1 gene:R03G5.1 None
R03G5.1a.1 ENSEMBL cdna:known chromosome:CEL140:X:7823593:7825699:1 gene:R03G5.1 None
NM_076922 NCBI Caenorhabditis elegans Elongation FacTor family member (eft-4) (eft-4) mRNA, complete cds. A 
NM_182443 NCBI Caenorhabditis elegans Elongation FacTor family member (eft-4) (eft-4) mRNA, complete cds. None
R03G5.1d ENSEMBL cdna:known chromosome:CEL140:X:7823616:7825206:1 gene:R03G5.1 A 
NM_182444 NCBI Caenorhabditis elegans Elongation FacTor family member (eft-4) (eft-4) mRNA, complete cds. A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_066119 6/11 Cross Hyb Matching Probes A 
F31E3.5.2 6/11 Cross Hyb Matching Probes A 
F31E3.5.1 6/11 Cross Hyb Matching Probes A 
F31E3.5.8 6/11 Cross Hyb Matching Probes A 
F31E3.5.3 6/11 Cross Hyb Matching Probes A 
F31E3.5.7 6/11 Cross Hyb Matching Probes A 
F31E3.5.4 6/11 Cross Hyb Matching Probes A 
F31E3.5.5 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:7824881-7825146(+) 66.89 66.89
Public Domain and Genome References
Ensembl F31E3.5
R03G5.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA81688 Elongation factor protein 3 [Caenorhabditis elegans] gb|AAA96068.1| Elongation factor protein 4, isoform a [Caenorhabditis elegans] ref|NP_509323.1| Elongation FacTor family member (eft-4) [Caenorhabditis elegans] ref|NP_498520.1| Elongation FacTor family member (eft-3) [Caenorhabditis elegans] sp|P53013|EF1A_CAEEL Elongation factor 1-alpha (EF-1-alpha) 0.0
blast CAE70307 Hypothetical protein CBG16828 [Caenorhabditis briggsae] emb|CAE70057.1| Hypothetical protein CBG16491 [Caenorhabditis briggsae] emb|CAE56763.1| Hypothetical protein CBG24566 [Caenorhabditis briggsae] 0.0
blast P27592 Elongation factor 1-alpha (EF-1-alpha) gb|AAA29416.1| elongation factor 0.0
blast AAO21384 Elongation factor protein 4, isoform d [Caenorhabditis elegans] ref|NP_872244.1| Elongation FacTor family member (eft-4) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.Transcription factor MotA, activation domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Transcription factor MotA, activation domain 1.20000004768372
Pfam IPR004161 EMBL-EBI Elongation factor Tu, domain 2 1.3E-25
Pfam IPR000795 EMBL-EBI Protein synthesis factor, GTP-binding 2.1E-112
Pfam IPR004160 EMBL-EBI Elongation factor Tu, C-terminal 6.4E-57
Pfam IPR000795 EMBL-EBI Protein synthesis factor, GTP-binding 3.5E-81
Pfam IPR004161 EMBL-EBI Elongation factor Tu, domain 2 1.3E-25
Pfam IPR000795 EMBL-EBI Protein synthesis factor, GTP-binding 4.4E-66
Pfam IPR000795 EMBL-EBI Protein synthesis factor, GTP-binding 1.9E-18
Pfam IPR004160 EMBL-EBI Elongation factor Tu, C-terminal 6.4E-57
Pfam IPR004161 EMBL-EBI Elongation factor Tu, domain 2 1.3E-25
Pfam IPR000795 EMBL-EBI Protein synthesis factor, GTP-binding 2.7E-82
Pfam IPR004160 EMBL-EBI Elongation factor Tu, C-terminal 6.4E-57
Sequence
Target Sequence 
>C. ELEGANS:171789_X_AT
gagcttaaggagaaggttgaccgtcgtaccggtaagaaggttgaggacttcccaaagttc
ctcaagtctggagatgctggaatcgtcgagctcatcccaaccaagccactttgtgttgaa
tccttccccgantacgctccacgcggacgtttccgccgttcgtgacatgagacaaaccgt
cgctgtcggagttatcaagtcccgttgagaagtccggtgagatcttaccgtcagt

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
GAGCTTAAGGAGAAGGTTGACCGTC 239 387 15 Antisense
GAGGACTTCCCAAAGTTCCTCAAGT 331 405 57 Antisense
GTTCCTCAAGTCTGGAGATGCTGGA 151 441 71 Antisense
GATGCTGGAATCGTCGAGCTCATCC 549 413 87 Antisense
ATCCCAACCAAGCCACTTTGTGTTG 666 37 108 Antisense
AAGCCACTTTGTGTTGAATCCTTCC 517 147 117 Antisense
TTTCCGCCGTTCGTGACATGAGACA 569 669 164 Antisense
GACATGAGACAAACCGTCGCTGTCG 369 369 178 Antisense
GTCGCTGTCGGAGTTATCAAGTCCC 176 475 193 Antisense
TCAAGTCCCGTTGAGAAGTCCGGTG 439 259 209 Antisense
AGTCCGGTGAGATCTTACCGTCAGT 217 57 225 Antisense
Sequence Source Affymetrix Proprietary Database