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[192129_at]

Description R03G5.1 /REP_DB=WormBase Gene ID /WP=CE01270 /TR=SW:P53013 /GB=AAA96068.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=elongation factor EF-1-alpha
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 22      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 17      6grp_total > 22      4grp_total > 40      6grp_highest_sub > 02      6grp_cgc > 61      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3856
1 2 3 4 range
A 12787.9
(-3)
P 		16643.5
(3)
P 		15963.1
(1.9)
P 		12943.4
(-2.8)
P 		3856
B 13625.9
(-3)
P 		13894.7
(-1.8)
P 		15014.9
(3)
P 		13980
(-1.5)
P 		1389
C 12863.8
(-3)
P 		13740.4
(-0.6)
P 		15063.5
(3)
P 		14646.1
(1.9)
P 		2200
avr 13092.5
(-3) 		14759.5
(1.4) 		15347.2
(3) 		13856.5
(-1) 		2255

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7480
1 2 3 4 5 6 range
A 12410.9
(3)
P 		10303.5
(0.7)
P 		11980.8
(2.5)
P 		8672.1
(-1.1)
P 		8208.8
(-1.6)
P 		6942.6
(-3)
P 		5468
B 12611.8
(2.8)
P 		12740.3
(3)
P 		11732.3
(1.8)
P 		10061.9
(-0.2)
P 		8908.5
(-1.5)
P 		7667.7
(-3)
P 		5073
C 9156.9
(-0.8)
P 		13868.1
(3)
P 		10429.8
(0.2)
P 		8754.1
(-1.1)
P 		8859.8
(-1)
P 		6387.9
(-3)
P 		7480
avr 11393.2
(2) 		12304
(3) 		11381
(2) 		9162.7
(-0.6) 		8659
(-1.1) 		6999.4
(-3) 		5305
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3355
1 2 3 4 range
A 4656.1
(3)
P 		3612.9
(0.7)
P 		4173.1
(2)
P 		1894.7
(-3)
P 		2761
B 4345.2
(3)
P 		3431.7
(-1)
P 		3479.3
(-0.8)
P 		2979.1
(-3)
P 		1366
C 4258.3
(0.9)
P 		3950.4
(0.2)
P 		5250.1
(3)
P 		2469.6
(-3)
P 		2781
avr 4419.9
(3) 		3665
(0.7) 		4300.8
(2.6) 		2447.8
(-3) 		1972

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2698
1 2 3 4 5 6 range
A 2287.9
(-1.2)
P 		3664.4
(3)
P 		2609.2
(-0.2)
P 		2199.4
(-1.5)
P 		2477.1
(-0.6)
P 		1690.3
(-3)
P 		1974
B 4388.3
(3)
P 		4240.7
(2.5)
P 		2849
(-2.4)
P 		2665
(-3)
P 		3619.4
(0.3)
P 		2859.3
(-2.3)
P 		1723
C 3394.1
(1)
P 		4231.6
(3)
P 		2654.5
(-0.8)
P 		1760.5
(-3)
P 		2866.9
(-0.3)
P 		2138.4
(-2.1)
P 		2471
avr 3356.8
(0.8) 		4045.6
(3) 		2704.2
(-1.4) 		2208.3
(-3) 		2987.8
(-0.5) 		2229.3
(-2.9) 		1837
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192129_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16101
Sequence Type Exemplar sequence
Representative Public ID R03G5.1 NCBI
Target Description R03G5.1 /REP_DB=WormBase Gene ID /WP=CE01270 /TR=SW:P53013 /GB=AAA96068.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=elongation factor EF-1-alpha
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_076922(11), NM_182443(11), NM_182444(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076922 NCBI Caenorhabditis elegans Elongation FacTor family member (eft-4) (eft-4) mRNA, complete cds. 11/11 None
NM_182443 NCBI Caenorhabditis elegans Elongation FacTor family member (eft-4) (eft-4) mRNA, complete cds. 11/11 None
NM_182444 NCBI Caenorhabditis elegans Elongation FacTor family member (eft-4) (eft-4) mRNA, complete cds. 11/11 None
SNAP00000030439 ENSEMBL cdna:SNAP chromosome:CEL140:X:7823760:7825206:1 11/11 None
GENEFINDER00000030450 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7823760:7825206:1 11/11 None
R03G5.1a.3 ENSEMBL cdna:known chromosome:CEL140:X:7823587:7825688:1 gene:R03G5.1 11/11 None
R03G5.1a.2 ENSEMBL cdna:known chromosome:CEL140:X:7823588:7825688:1 gene:R03G5.1 11/11 None
R03G5.1c.1 ENSEMBL cdna:known chromosome:CEL140:X:7823589:7825708:1 gene:R03G5.1 11/11 None
R03G5.1c.2 ENSEMBL cdna:known chromosome:CEL140:X:7823593:7825708:1 gene:R03G5.1 11/11 None
R03G5.1a.1 ENSEMBL cdna:known chromosome:CEL140:X:7823593:7825699:1 gene:R03G5.1 11/11 None
R03G5.1d ENSEMBL cdna:known chromosome:CEL140:X:7823616:7825206:1 gene:R03G5.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
R03G5.1c.3 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
181044 4 3 NM_076922 192129_at (11), 194263_x_at (11)
NM_182443 192129_at (11), 194263_x_at (11)
NM_182444 192129_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:7823614-7825205(+) 100.0 100.0
chrIII:6970067-6971609(-) 93.53 93.53
Public Domain and Genome References
Ensembl 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:192129_AT
tggaaccgtcccagtcggacgtgttgagaccggaatcatcaagccaggaatggtcgtcac
cttcgccccacagaacgtgaccactgaagtcaagtccgtcgagatgcaccacgagtctct
tccagaggccgtcccaggagacaacgtcggattcaacgtcaagaacgtttccgtcaagga
catccgtcgtggatccgtctgctccgactccaagcaagatccagccaaggaggcccgtac
cttccacgctcaggttatcatcatgaaccatccaggacaaatctccaatggatacactcc
agttcttgattgccacaccgctcacatcgcctgcaagttcaacgagcttaaggagaaggt
cgatcgtcgtaccggtaagaaggttgaggacttcccaaaattcctcaagtccggagatgc
tggaatcgtcgagctcatcccaaccaagccactttgcgttgagtccttcaccgactacgc
tccactcggacgtttcgccgttcgtgacatgcgtcaaaccgtcgctgtcggagtcatcaa
gtctgttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGAACCGTCCCAGTCGGACGTGTT 103 545 789 Antisense
TCAAGTCCGTCGAGATGCACCACGA 314 633 878 Antisense
GTCAAGAACGTTTCCGTCAAGGACA 297 463 946 Antisense
TCAAGGACATCCGTCGTGGATCCGT 159 633 962 Antisense
GCAAGATCCAGCCAAGGAGGCCCGT 162 319 1002 Antisense
TACCTTCCACGCTCAGGTTATCATC 667 649 1026 Antisense
AGGAGAAGGTCGATCGTCGTACCGG 81 57 1139 Antisense
AATTCCTCAAGTCCGGAGATGCTGG 63 179 1187 Antisense
AACCAAGCCACTTTGCGTTGAGTCC 533 147 1230 Antisense
TGACATGCGTCAAACCGTCGCTGTC 6 571 1293 Antisense
GCTGTCGGAGTCATCAAGTCTGTTG 644 295 1312 Antisense
Sequence Source Affymetrix Proprietary Database