[Home] | [Total List]

[192714_at] RNA polymerase II elongation factor

Description W03H1.2 /REP_DB=WormBase Gene ID /WP=CE07568 /TR=Q23153 /GB=AAA82628.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=RNA polymerase II elongation factor
Cluster 6grp_total > 02      4grp_total > 51      6grp_cgc > 42      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 190
1 2 3 4 range
A 141.3
(-1.7)
A 		231.9
(3)
A 		190.3
(0.9)
A 		115
(-3)
A 		117
B 110.2
(-1)
A 		174.2
(3)
A 		125.8
(0)
A 		77.1
(-3)
A 		97
C 157.4
(2.2)
A 		176.4
(3)
A 		137.9
(1.3)
A 		42.2
(-3)
A 		134
avr 136.3
(0) 		194.2
(3) 		151.3
(0.8) 		78.1
(-3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 128
1 2 3 4 5 6 range
A 117.9
(2.5)
A 		126.7
(3)
A 		82.7
(0.5)
A 		19.5
(-3)
A 		87.7
(0.8)
A 		64.1
(-0.5)
A 		107
B 108.2
(-0.6)
A 		147
(3)
A 		81.9
(-3)
A 		81.7
(-3)
A 		125.1
(1)
A 		81.5
(-3)
A 		66
C 122.3
(3)
A 		114.1
(2.1)
A 		95.8
(0)
A 		118.6
(2.6)
A 		77.5
(-2)
A 		68.5
(-3)
A 		54
avr 116.1
(1.6) 		129.3
(3) 		86.8
(-1.4) 		73.3
(-2.8) 		96.8
(-0.4) 		71.4
(-3) 		58
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 51.4
(3)
A 		50.3
(2.8)
A 		49.8
(2.7)
A 		16.8
(-3)
A 		35
B 35.1
(1.2)
A 		43
(3)
A 		29.1
(-0.1)
A 		16.4
(-3)
A 		27
C 52.1
(3)
A 		50.7
(2.8)
A 		48.1
(2.5)
A 		7.1
(-3)
A 		45
avr 46.2
(2.7) 		48
(3) 		42.3
(2) 		13.4
(-3) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 21.7
(-0.5)
A 		45.1
(3)
A 		18
(-1)
A 		4.9
(-3)
A 		26.5
(0.2)
A 		15.6
(-1.4)
A 		40
B 37.7
(0.5)
A 		48.9
(2.6)
A 		19.9
(-3)
A 		21.6
(-2.7)
A 		50.8
(3)
A 		30.4
(-1)
A 		31
C 45.3
(3)
A 		34.8
(0.2)
A 		24.4
(-2.6)
A 		23.8
(-2.8)
A 		25.1
(-2.4)
A 		22.9
(-3)
A 		22
avr 34.9
(1.2) 		42.9
(3) 		20.8
(-2.1) 		16.8
(-3) 		34.1
(1) 		23
(-1.6) 		26
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192714_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18580
Sequence Type Exemplar sequence
Representative Public ID W03H1.2 NCBI
Target Description W03H1.2 /REP_DB=WormBase Gene ID /WP=CE07568 /TR=Q23153 /GB=AAA82628.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=RNA polymerase II elongation factor
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_075924(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075924 NCBI Caenorhabditis elegans ELongin C family member (elc-2) (elc-2) mRNA, complete cds. 11/11 None
SNAP00000037685 ENSEMBL cdna:SNAP chromosome:CEL140:X:1777350:1778005:-1 11/11 None
GENEFINDER00000037700 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1777470:1778678:-1 9/11 None
W03H1.2 ENSEMBL cdna:known chromosome:CEL140:X:1777350:1778141:-1 gene:W03H1.2 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
chrX:1777349-1778141(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA polymerase II elongation factor
Gene Symbol elc-2
Ensembl W03H1.2
Entrez Gene 189175 Entrez gene
SwissProt Q23153 EMBL-EBI
WormBase CE07568 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA82628 Elongin c protein 2 [Caenorhabditis elegans] ref|NP_508325.1| ELongin C family member (elc-2) [Caenorhabditis elegans] 8.0E-92
blast AAA82628 Elongin c protein 2 [Caenorhabditis elegans] ref|NP_508325.1| ELongin C family member (elc-2) [Caenorhabditis elegans] 5.0E-77
blast AAA82628 Elongin c protein 2 [Caenorhabditis elegans] ref|NP_508325.1| ELongin C family member (elc-2) [Caenorhabditis elegans] 1.0E-59
blast AAK26155 Elongin c protein 1 [Caenorhabditis elegans] ref|NP_497405.1| ELongin C family member (elc-1) [Caenorhabditis elegans] 1.0E-28
blast AAK26155 Elongin c protein 1 [Caenorhabditis elegans] ref|NP_497405.1| ELongin C family member (elc-1) [Caenorhabditis elegans] 2.0E-28
blast CAE66436 Hypothetical protein CBG11707 [Caenorhabditis briggsae] 2.0E-27
blast CAE66436 Hypothetical protein CBG11707 [Caenorhabditis briggsae] 4.0E-27
Protein Domains
Database ID Description E-Value
Pfam IPR001232 EMBL-EBI SKP1 component 4.9E-22
Pfam IPR001232 EMBL-EBI SKP1 component 4.9E-22
Pfam IPR001232 EMBL-EBI SKP1 component 3.6E-19
Sequence
Target Sequence 
>C. ELEGANS:192714_AT
atggatccgcagccggaggttttcaagcggcctccaataaggatgacgggctcgaagagc
cagattctcaaaaaactggcgccaagccgcagccggtcccgatcagtgggcttgaaggcc
cacgatccaagtacgtcaagctcgtgagtaatgacgaccacgagttcattataaaaaggg
aggtggccatgacttcgaaatcccttagagaattgttcgcaaatccaacagttgacttgg
cggcggcaaacaacaccgtctacttcagtgatttccagtcgcatatcttgcaaaaggtct
gccattatctagcttacaagaccaaatatcgtcactctcgtgttgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGATCCGCAGCCGGAGGTTTTCA 637 49 89 Antisense
GAGGTTTTCAAGCGGCCTCCAATAA 233 367 104 Antisense
CAAAAAACTGGCGCCAAGCCGCAGC 452 191 157 Antisense
CCGGTCCCGATCAGTGGGCTTGAAG 271 261 181 Antisense
GCCCACGATCCAAGTACGTCAAGCT 579 285 206 Antisense
GGAGGTGGCCATGACTTCGAAATCC 131 515 267 Antisense
TGACTTGGCGGCGGCAAACAACACC 186 569 321 Antisense
AACAACACCGTCTACTTCAGTGATT 241 131 337 Antisense
GTGATTTCCAGTCGCATATCTTGCA 545 483 356 Antisense
AAGGTCTGCCATTATCTAGCTTACA 121 161 382 Antisense
CAAATATCGTCACTCTCGTGTTGCC 122 193 411 Antisense
Sequence Source Affymetrix Proprietary Database