[Home] | [Total List]

[188680_at] PHD-finger.

Description C11G6.3 /REP_DB=WormBase Gene ID /WP=CE05257 /TR=Q17909 /GB=CAA94113.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=PHD-finger.
Cluster 6grp_highest_10_10 > 51      6grp_high1_10_10 > 15      4grp_highest_8_8 > 51      4grp_high_8_8 > 32      6grp_highest_nonorm > 70      6grp_total > 25      4grp_total > 47      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 304
1 2 3 4 range
A 435.5
(3)
P 		292.7
(-1.2)
P 		239.4
(-2.8)
P 		233.4
(-3)
P 		202
B 519.9
(3)
P 		270.7
(-2.3)
P 		255.8
(-2.6)
P 		235.9
(-3)
P 		284
C 382.3
(3)
P 		215.5
(-3)
P 		238.7
(-2.2)
P 		307.5
(0.3)
P 		167
avr 445.9
(3) 		259.6
(-2.6) 		244.6
(-3) 		258.9
(-2.6) 		201

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 238
1 2 3 4 5 6 range
A 419.3
(3)
P 		409.5
(2.7)
P 		275.6
(-1.5)
P 		273.6
(-1.6)
P 		228.9
(-3)
P 		284.7
(-1.2)
P 		190
B 406.2
(3)
P 		364.5
(1.7)
P 		210.5
(-3)
P 		220.2
(-2.7)
P 		245.3
(-1.9)
P 		251.1
(-1.8)
P 		196
C 408.4
(3)
P 		394.7
(2.6)
P 		312.3
(0.5)
P 		241.1
(-1.4)
P 		230.3
(-1.7)
P 		181.5
(-3)
P 		227
avr 411.3
(3) 		389.6
(2.3) 		266.1
(-1.9) 		245
(-2.7) 		234.8
(-3) 		239.1
(-2.9) 		177
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 158.6
(3)
P 		63.5
(-1.6)
P 		62.6
(-1.6)
P 		34.2
(-3)
P 		124
B 165.8
(3)
P 		66.9
(-2.1)
P 		59.3
(-2.5)
P 		50.3
(-3)
P 		116
C 126.6
(3)
P 		61.9
(-2.2)
P 		83.2
(-0.5)
P 		51.8
(-3)
P 		75
avr 150.3
(3) 		64.1
(-1.9) 		68.4
(-1.7) 		45.4
(-3) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 103
1 2 3 4 5 6 range
A 77.3
(-1.8)
P 		145.6
(3)
P 		60
(-3)
P 		69.4
(-2.3)
P 		69.1
(-2.4)
P 		69.3
(-2.3)
P 		86
B 141.3
(3)
P 		121.3
(1.7)
P 		51.1
(-3)
P 		58.3
(-2.5)
P 		99.7
(0.2)
P 		93.6
(-0.2)
P 		90
C 151.4
(3)
P 		120.4
(1.2)
P 		79.5
(-1.2)
P 		48.5
(-3)
P 		74.5
(-1.5)
P 		60.8
(-2.3)
P 		103
avr 123.3
(2.5) 		129.1
(3) 		63.5
(-2.6) 		58.7
(-3) 		81.1
(-1.1) 		74.6
(-1.6) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188680_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18038
Sequence Type Exemplar sequence
Representative Public ID C11G6.3 NCBI
Target Description C11G6.3 /REP_DB=WormBase Gene ID /WP=CE05257 /TR=Q17909 /GB=CAA94113.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=PHD-finger.
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_078257(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078257 NCBI Caenorhabditis elegans C11G6.3 (PHD-finger.) mRNA, complete cds. 11/11 None
GENEFINDER00000002973 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:16332364:16345501:1 11/11 None
SNAP00000002968 ENSEMBL cdna:SNAP chromosome:CEL140:X:16339779:16345501:1 11/11 None
C11G6.3 ENSEMBL cdna:known chromosome:CEL140:X:16340627:16345941:1 gene:C11G6.3 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:16340626-16345501(+) 77.98 100.0
Public Domain and Genome References
Gene Title PHD-finger.
Ensembl C11G6.3
Entrez Gene 3565673 Entrez gene
SwissProt Q17909 EMBL-EBI
WormBase CE05257 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94111 Hypothetical protein C11G6.1 [Caenorhabditis elegans] ref|NP_510657.1| TAF (TBP-associated transcription factor) family member (taf-3) [Caenorhabditis elegans] 0.0
blast CAE69979 Hypothetical protein CBG16377 [Caenorhabditis briggsae] 1.0E-106
blast CAA94113 Hypothetical protein C11G6.3 [Caenorhabditis elegans] ref|NP_510658.1| C11G6.3 [Caenorhabditis elegans] 3.0E-51
blast CAA94113 Hypothetical protein C11G6.3 [Caenorhabditis elegans] ref|NP_510658.1| C11G6.3 [Caenorhabditis elegans] 1.0E-50
blast CAE69978 Hypothetical protein CBG16376 [Caenorhabditis briggsae] 9.0E-33
blast CAE69978 Hypothetical protein CBG16376 [Caenorhabditis briggsae] 1.0E-32
blast CAE63407 Hypothetical protein CBG07847 [Caenorhabditis briggsae] 6.0E-15
Protein Domains
Database ID Description E-Value
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 2.9E-19
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 2.9E-19
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 2.9E-19
Sequence
Target Sequence 
>C. ELEGANS:188680_AT
gaaggaggaagcatccactccggtgatcatccgtccacttctctcacaggaagatgacga
ttccaatggctcggagagcagcgaggagatttggatttgtccggtgtgctcggttgccta
cacagttggagccaacatgattggatgcgatcagtgtcaggattggtttcattggcactg
cgttggactcactgccgaaccaacagactcgaagtggttctgcacccgttgtaccaaggg
aaacaagagcaaaaagcacggaaaacgctctgcaaccggaccacatgatcgtgacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGAGGAAGCATCCACTCCGGTG 71 333 843 Antisense
CGTCCACTTCTCTCACAGGAAGATG 22 247 874 Antisense
GACGATTCCAATGGCTCGGAGAGCA 435 377 898 Antisense
TTTGGATTTGTCCGGTGTGCTCGGT 243 667 932 Antisense
TCGGTTGCCTACACAGTTGGAGCCA 554 605 952 Antisense
AGGATTGGTTTCATTGGCACTGCGT 598 57 1001 Antisense
TCACTGCCGAACCAACAGACTCGAA 255 627 1031 Antisense
CAGACTCGAAGTGGTTCTGCACCCG 447 203 1046 Antisense
TTCTGCACCCGTTGTACCAAGGGAA 364 685 1060 Antisense
GCACGGAAAACGCTCTGCAACCGGA 471 309 1098 Antisense
GCAACCGGACCACATGATCGTGACC 433 319 1114 Antisense
Sequence Source Affymetrix Proprietary Database