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[193760_s_at] RNA polymerase II elongation factor like

Description R12H7.5 /REP_DB=WormBase Gene ID /WP=CE06317 /GEN=skr-19 /TR=Q21969 /GB=CAA90636.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=RNA polymerase II elongation factor like
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 01      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 51      6grp_total > 08      4grp_total > 03      6grp_cgc > 10      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 686
1 2 3 4 range
A 453
(-1.8)
P 		317.5
(-3)
P 		349.7
(-2.7)
P 		1003.9
(3)
P 		686
B 443.2
(-2.3)
P 		396.4
(-2.8)
P 		376.9
(-3)
P 		912.3
(3)
P 		535
C 395.4
(-3)
P 		394
(-3)
P 		396.2
(-3)
P 		787.1
(3)
P 		393
avr 430.5
(-2.3) 		369.3
(-3) 		374.3
(-2.9) 		901.1
(3) 		532

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 383
1 2 3 4 5 6 range
A 780.4
(3)
P 		576.1
(-1)
P 		664.5
(0.7)
P 		593.6
(-0.7)
P 		563.4
(-1.2)
P 		474
(-3)
P 		306
B 716
(3)
P 		496.2
(-1.1)
P 		518.1
(-0.7)
P 		591.7
(0.7)
P 		537.1
(-0.4)
P 		397.8
(-3)
P 		318
C 634.2
(3)
P 		579.5
(1.4)
P 		583.5
(1.5)
P 		540.8
(0.2)
P 		488.4
(-1.4)
P 		434.2
(-3)
P 		200
avr 710.2
(3) 		550.6
(-0.5) 		588.7
(0.3) 		575.4
(0.1) 		529.6
(-0.9) 		435.3
(-3) 		275
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 164.9
(3)
P 		68.9
(-3)
P 		91.4
(-1.6)
P 		146.9
(1.9)
P 		96
B 141.3
(0)
P 		97.9
(-2.4)
P 		87.3
(-3)
P 		194.4
(3)
P 		107
C 130.9
(1.3)
P 		113.3
(-3)
P 		138.1
(3)
P 		132.7
(1.7)
P 		25
avr 145.7
(1.9) 		93.4
(-3) 		105.6
(-1.9) 		158
(3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 143.9
(-1.1)
P 		204.9
(3)
P 		144.7
(-1)
P 		150.5
(-0.6)
P 		170
(0.7)
P 		115.4
(-3)
P 		90
B 249.1
(3)
P 		165.2
(-1.1)
P 		125.8
(-3)
P 		156.7
(-1.5)
P 		218.2
(1.5)
P 		148.4
(-1.9)
P 		123
C 235.1
(3)
P 		176.8
(0.2)
P 		148.5
(-1.1)
P 		108.8
(-3)
P 		158.1
(-0.7)
P 		145.4
(-1.3)
P 		126
avr 209.4
(3) 		182.3
(0.8) 		139.7
(-2.7) 		138.7
(-2.8) 		182.1
(0.8) 		136.4
(-3) 		73
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193760_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17827
Sequence Type Exemplar sequence
Representative Public ID R12H7.5 NCBI
Target Description R12H7.5 /REP_DB=WormBase Gene ID /WP=CE06317 /GEN=skr-19 /TR=Q21969 /GB=CAA90636.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=RNA polymerase II elongation factor like
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_077791(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077791 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-20) (skr-20) mRNA, complete cds. 11/11 None
SNAP00000017896 ENSEMBL cdna:SNAP chromosome:CEL140:X:13222936:13223457:-1 11/11 None
GENEFINDER00000017902 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13222936:13223457:-1 11/11 None
R12H7.5 ENSEMBL cdna:known chromosome:CEL140:X:13222936:13223457:-1 gene:R12H7.5 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:13222935-13223457(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA polymerase II elongation factor like
Gene Symbol skr-20
Ensembl R12H7.5
Entrez Gene 181445 Entrez gene
SwissProt Q21969 EMBL-EBI
WormBase CE06317 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6633 fatty acid biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90636 Hypothetical protein R12H7.5 [Caenorhabditis elegans] ref|NP_510192.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-20) [Caenorhabditis elegans] gb|AAL34107.1| SKR-20 [Caenorhabditis elegans] 4.0E-97
blast CAE61400 Hypothetical protein CBG05259 [Caenorhabditis briggsae] 4.0E-64
blast CAB03110 Hypothetical protein F46A9.5 [Caenorhabditis elegans] emb|CAB03027.1| Hypothetical protein F46A9.5 [Caenorhabditis elegans] ref|NP_492513.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-1) [Caenorhabditis elegans] 5.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR001232 EMBL-EBI SKP1 component 2.4E-38
Pfam IPR001232 EMBL-EBI SKP1 component 9.3E-27
Sequence
Target Sequence 
>C. ELEGANS:193760_S_AT
atctgcgcccttgtacaaactgaagtcagaggatggtcaaatttttaatgtcgaacgagg
accaatgaaattttgtgcatttatcaatcagaagtttattgaccatggagtgaacgacag
aaattgtgaacgagcagatccaattctcgttccattccactcatcgattgttcaagctgt
aatagagtggctttaccattatcaggacaacccgctcgcccgacgagactccaaaattcg
ttaccacgatttttccgaatgggacaagcagtttttcaacgtggaatcgggagttctttt
tgcactactcaatgcttctcatgcgcttggagtcgaagatttgatgaatatggggtgtgc
agccgcagcagaattgattcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCTGCGCCCTTGTACAAACTGAAG 691 29 27 Antisense
CGAGCAGATCCAATTCTCGTTCCAT 346 251 157 Antisense
TTCCATTCCACTCATCGATTGTTCA 316 701 176 Antisense
TTACCATTATCAGGACAACCCGCTC 357 681 219 Antisense
GAGACTCCAAAATTCGTTACCACGA 523 393 251 Antisense
GGGACAAGCAGTTTTTCAACGTGGA 330 495 287 Antisense
GGAATCGGGAGTTCTTTTTGCACTA 458 533 309 Antisense
TGCACTACTCAATGCTTCTCATGCG 422 577 327 Antisense
TGCTTCTCATGCGCTTGGAGTCGAA 473 579 339 Antisense
TGAATATGGGGTGTGCAGCCGCAGC 210 575 371 Antisense
GCAGCCGCAGCAGAATTGATTCGAG 293 313 385 Antisense
Sequence Source Affymetrix Proprietary Database