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[192359_s_at] LIN-19 like protein

Description K08E7.7 /REP_DB=WormBase Gene ID /WP=CE11928 /GEN=cul-6 /TR=SW:Q21346 /GB=CAB01230.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=LIN-19 like protein
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 21      4grp_high_8_8 > 24      6grp_highest_nonorm > 71      6grp_total > 32      4grp_total > 47      6grp_highest_sub > 01_02_03      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 226
1 2 3 4 range
A 331
(3)
P 		155.2
(-3)
P 		183.6
(-2)
P 		200.7
(-1.4)
P 		176
B 288.6
(3)
P 		174
(-2.9)
P 		171.3
(-3)
P 		182.9
(-2.4)
P 		117
C 380.9
(3)
P 		181
(-3)
M 		215.8
(-2)
P 		204.2
(-2.3)
P 		200
avr 333.5
(3) 		170.1
(-3) 		190.2
(-2.3) 		195.9
(-2.1) 		163

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 306
1 2 3 4 5 6 range
A 364.7
(0.8)
P 		398.7
(1.5)
P 		474.3
(3)
P 		414.9
(1.8)
P 		219.1
(-2)
P 		168.7
(-3)
P 		306
B 402.7
(3)
P 		383.3
(2.4)
P 		362.5
(1.8)
P 		323
(0.7)
P 		219.3
(-2.4)
P 		197.5
(-3)
P 		205
C 369.1
(1.8)
P 		406.6
(2.9)
P 		411.4
(3)
P 		303.2
(0)
P 		192.7
(-3)
P 		229.7
(-2)
P 		219
avr 378.8
(2) 		396.2
(2.5) 		416.1
(3) 		347
(1.1) 		210.4
(-2.7) 		198.6
(-3) 		218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 120.5
(3)
P 		33.7
(-2.7)
P 		48
(-1.8)
P 		29.4
(-3)
P 		91
B 92
(3)
P 		43
(-2.5)
P 		39.7
(-2.9)
P 		39
(-3)
P 		53
C 126.1
(3)
P 		52
(-1.8)
M 		75.2
(-0.3)
P 		34.4
(-3)
P 		92
avr 112.9
(3) 		42.9
(-2.3) 		54.3
(-1.5) 		34.3
(-3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 67.2
(-1.4)
P 		141.8
(3)
P 		103.3
(0.7)
P 		105.2
(0.8)
P 		66.1
(-1.5)
P 		41.1
(-3)
P 		101
B 140.1
(3)
P 		127.6
(1.9)
P 		88
(-1.7)
P 		85.5
(-1.9)
P 		89.1
(-1.6)
P 		73.7
(-3)
P 		66
C 136.8
(3)
P 		124.1
(2)
P 		104.7
(0.5)
P 		61
(-3)
P 		62.3
(-2.9)
P 		76.9
(-1.7)
P 		76
avr 114.7
(1.5) 		131.2
(3) 		98.7
(0.1) 		83.9
(-1.2) 		72.5
(-2.2) 		63.9
(-3) 		67
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192359_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9252
Sequence Type Exemplar sequence
Representative Public ID K08E7.7 NCBI
Target Description K08E7.7 /REP_DB=WormBase Gene ID /WP=CE11928 /GEN=cul-6 /TR=SW:Q21346 /GB=CAB01230.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=LIN-19 like protein
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_070011(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070011 NCBI Caenorhabditis elegans CULlin family member (cul-6) (cul-6) mRNA, complete cds. 11/11 None
SNAP00000042650 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12586523:12590398:-1 9/11 None
GENEFINDER00000042657 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12586523:12590398:-1 11/11 None
K08E7.7 ENSEMBL cdna:known chromosome:CEL140:IV:12586481:12590398:-1 gene:K08E7.7 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
chrIV:12586528-12590404(-) 100.0 100.0
Public Domain and Genome References
Gene Title LIN-19 like protein
Gene Symbol cul-6
Ensembl K08E7.7
Entrez Gene 178214 Entrez gene
SwissProt Q21346 EMBL-EBI
WormBase CE11928 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7049 cell cycle inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01230 Hypothetical protein K08E7.7 [Caenorhabditis elegans] ref|NP_502412.1| CULlin family member (cul-6) [Caenorhabditis elegans] sp|Q21346|CUL6_CAEEL Cullin-6 0.0
blast CAA84695 Hypothetical protein D2045.6 [Caenorhabditis elegans] ref|NP_499309.1| CULlin family member (cul-1) [Caenorhabditis elegans] sp|Q17389|CUL1_CAEEL Cullin-1 (Abnormal cell lineage 19 protein) gb|AAC47120.1| CUL-1 0.0
blast T20365 hypothetical protein D2045.6 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 6.9999999825246E-36
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 7.99999999855967E-23
Pfam IPR001373 EMBL-EBI Cullin 1.0E-126
Pfam IPR001373 EMBL-EBI Cullin 1.0E-126
Pfam IPR001373 EMBL-EBI Cullin 1.4E-21
Sequence
Target Sequence 
>C. ELEGANS:192359_S_AT
aactgggcttactcacaatgccggggcgaagttaactctaaagctttcgaaaagaaatat
gtatttattgttacagcaagccaactctgcacgctctatcttttcaatgagcaggactcg
ttcacaattgaacaaatttccaaagctattgaaatgactgcaaagtcaacttcggctatc
gtaggatctcttaatccggttattgatccagtgctagtagttgacaaaggcaacgaaaaa
gatggatatccacctgatgccgtagtgagtttgaatacgaagtatgcgaacaaaaaagtg
cgagtggatttgacaacggcaattaaaaaagcaacagcagatcgtgagacagatgcggtt
caaaatacagttgaaagcgataggaagtatgagatcaaggcatgcatcgtaagaatcatg
aagacacggaaaagtctcacccacacattgctcattaatgagataattagtcaattgaaa
agccggtttacgccaaatgtgcaaatgatcaagatatgcattgaaatcctgattgagcag
ttgtacatacgtcgatcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTGGGCTTACTCACAATGCCGGG 574 141 1609 Antisense
CAATGCCGGGGCGAAGTTAACTCTA 45 149 1624 Antisense
CTGCACGCTCTATCTTTTCAATGAG 58 239 1695 Antisense
TGAGCAGGACTCGTTCACAATTGAA 624 567 1716 Antisense
AACTTCGGCTATCGTAGGATCTCTT 423 139 1776 Antisense
TCCGGTTATTGATCCAGTGCTAGTA 243 593 1803 Antisense
GATATCCACCTGATGCCGTAGTGAG 473 425 1853 Antisense
AGACACGGAAAAGTCTCACCCACAC 531 71 2030 Antisense
CTCACCCACACATTGCTCATTAATG 316 229 2044 Antisense
GAAAAGCCGGTTTACGCCAAATGTG 472 353 2085 Antisense
GAGCAGTTGTACATACGTCGATCAG 622 387 2143 Antisense
Sequence Source Affymetrix Proprietary Database