[Home] | [Total List]

[189936_at]

Description T24A6.9 /REP_DB=WormBase Gene ID /WP=CE28491 /TR=O61940 /GB=AAC17796.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 56      4grp_total > 12      6grp_cgc > 28      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 37.8
(0.3)
A 		7.6
(-2.6)
A 		3.6
(-3)
A 		66.7
(3)
A 		63
B 28.7
(-1.6)
A 		23.6
(-2.1)
A 		14.9
(-3)
A 		75
(3)
A 		60
C 10.7
(-2.2)
A 		19.8
(-1.3)
A 		3.4
(-3)
A 		61
(3)
A 		58
avr 25.7
(-1.2) 		17
(-2) 		7.3
(-3) 		67.6
(3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 1.4
(-3)
A 		22.2
(0.1)
A 		30.8
(1.3)
A 		29
(1)
A 		34.4
(1.8)
A 		42.3
(3)
A 		41
B 19.9
(0.9)
A 		29.5
(3)
A 		29.6
(3)
A 		2.1
(-3)
A 		21.8
(1.3)
A 		25.9
(2.2)
A 		28
C 50.6
(3)
A 		37
(1.2)
A 		4.2
(-3)
A 		26.3
(-0.1)
A 		7.2
(-2.6)
A 		37.5
(1.3)
A 		46
avr 24
(-1.2) 		29.6
(0.9) 		21.5
(-2.1) 		19.1
(-3) 		21.1
(-2.3) 		35.2
(3) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 13.8
(3)
A 		1.6
(-2.7)
A 		0.9
(-3)
A 		9.8
(1.1)
A 		13
B 9.2
(-0.3)
A 		5.8
(-1.9)
A 		3.5
(-3)
A 		16
(3)
A 		13
C 3.5
(-1.5)
A 		5.7
(-0)
A 		1.2
(-3)
A 		10.3
(3)
A 		9
avr 8.8
(1.1) 		4.4
(-1.5) 		1.9
(-3) 		12
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 0.3
(-3)
A 		7.9
(1.5)
A 		6.7
(0.8)
A 		7.4
(1.2)
A 		10.4
(3)
A 		10.3
(2.9)
A 		10
B 6.9
(1.1)
A 		9.8
(3)
A 		7.2
(1.3)
A 		0.6
(-3)
A 		8.9
(2.4)
A 		9.6
(2.9)
A 		9
C 18.8
(3)
A 		11.3
(0.5)
A 		1.1
(-3)
A 		5.3
(-1.6)
A 		2.3
(-2.6)
A 		12.6
(0.9)
A 		18
avr 8.7
(1) 		9.7
(2) 		5
(-2.4) 		4.4
(-3) 		7.2
(-0.4) 		10.8
(3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189936_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14874
Sequence Type Exemplar sequence
Representative Public ID T24A6.9 NCBI
Target Description T24A6.9 /REP_DB=WormBase Gene ID /WP=CE28491 /TR=O61940 /GB=AAC17796.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger 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 GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) AF273837(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
AF273837 NCBI Caenorhabditis elegans clone yk362c6 nuclear receptor NHR-93 (nhr-93) pseudogene, mRNA sequence. 9/11 None
SNAP00000027423 ENSEMBL cdna:SNAP chromosome:CEL140:V:3536024:3537217:-1 9/11 None
GENEFINDER00000027439 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3532852:3540155:-1 10/11 None
T24A6.9 ENSEMBL cdna:pseudogene chromosome:CEL140:V:3535980:3537024:-1 gene:T24A6.9 9/11 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
chrV:3535396-3537672(-) 100.0 100.0
Public Domain and Genome References
Ensembl T24A6.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC17795 Hypothetical protein T24A6.8 [Caenorhabditis elegans] ref|NP_503987.1| T24A6.8 [Caenorhabditis elegans] 0.0
blast CAE62618 Hypothetical protein CBG06740 [Caenorhabditis briggsae] 1.0E-137
blast AAA98573 Hypothetical protein C12D5.2 [Caenorhabditis elegans] ref|NP_504990.2| C12D5.2 [Caenorhabditis elegans] 1.0E-115
blast AAA98573 Hypothetical protein C12D5.2 [Caenorhabditis elegans] ref|NP_504990.2| C12D5.2 [Caenorhabditis elegans] 1.0E-80
blast AAC17795 Hypothetical protein T24A6.8 [Caenorhabditis elegans] ref|NP_503987.1| T24A6.8 [Caenorhabditis elegans] 9.0E-74
blast B89004 protein T24A6.9 [imported] - Caenorhabditis elegans 9.0E-63
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.3E-34
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.3E-34
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.4E-47
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 3.0E-78
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.4E-6
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.5E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000027439 4 10-32,53-72,82-104,125-144
Sequence
Target Sequence 
>C. ELEGANS:189936_AT
gaaaaattccgattatgcgcctataatccagattgggcaacaatgggagggctggcggat
ttgattaaaaataatgggaaactgaatcaagttgataaatatggaccttttcccggatgg
cccctcgatccggatcacgagtttgcgcaccagaatttttatcgagatcttaaagcgttc
tcaactgacagagcacctggctatgcactgttctcagcactgataggaccgatgagacgg
gtcggtactcaatactttgagtatttgctgctaaaagcattatatttgtgcaatccagcg
attcctggcttaacagttcaagctcaacatgtgctggaaagagagcgtcggttatattcc
aacattctaatggagttttgtcttcggaattattcaaatggagcaacgaaatttgtagat
gttattcaactgattggagtgctggaatggcaacagaagaacttgaaggatcttcacgtg
ttattgttaacaccagtgctatcacagttaccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAAATTCCGATTATGCGCCTATA 116 355 409 Antisense
TCGATCCGGATCACGAGTTTGCGCA 357 603 533 Antisense
GAGTTTGCGCACCAGAATTTTTATC 301 399 547 Antisense
AGCGTTCTCAACTGACAGAGCACCT 369 79 582 Antisense
GACAGAGCACCTGGCTATGCACTGT 589 367 595 Antisense
GCTATGCACTGTTCTCAGCACTGAT 113 301 608 Antisense
GACGGGTCGGTACTCAATACTTTGA 242 375 644 Antisense
GTGCAATCCAGCGATTCCTGGCTTA 605 479 696 Antisense
GAGCGTCGGTTATATTCCAACATTC 539 385 751 Antisense
GAAGGATCTTCACGTGTTATTGTTA 45 335 873 Antisense
ACACCAGTGCTATCACAGTTACCAG 263 109 898 Antisense
Sequence Source Affymetrix Proprietary Database