[Home] | [Total List]

[192271_s_at] zinc finger protein

Description C24G6.4 /REP_DB=WormBase Gene ID /WP=CE27727 /GEN=nhr-47 /TR=O76382 /GB=AAC19212.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 13      4grp_highest_8_8 > 46      4grp_high_8_8 > 11      6grp_highest_nonorm > 51      6grp_total > 13      4grp_total > 21      6grp_highest_sub > De      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 353
1 2 3 4 range
A 528.3
(-0.5)
P 		496.3
(-1.1)
P 		399
(-3)
P 		709.9
(3)
P 		311
B 559.6
(2.2)
P 		389.5
(-2.3)
P 		364.5
(-3)
P 		588.6
(3)
P 		224
C 638.2
(2.5)
P 		411.6
(-1.9)
P 		357.4
(-3)
P 		661.1
(3)
P 		304
avr 575.4
(1.3) 		432.5
(-1.7) 		373.6
(-3) 		653.2
(3) 		280

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 324
1 2 3 4 5 6 range
A 610.7
(3)
P 		589.1
(2.5)
P 		436.8
(-1)
P 		454.8
(-0.6)
P 		386.4
(-2.2)
P 		349.4
(-3)
P 		261
B 644.1
(3)
P 		603.1
(2.2)
P 		498.4
(0)
P 		467.6
(-0.6)
P 		389.5
(-2.2)
P 		348.6
(-3)
P 		296
C 493
(-0.2)
P 		665.2
(3)
P 		482.3
(-0.4)
P 		577.5
(1.4)
P 		362.1
(-2.6)
P 		340.8
(-3)
P 		324
avr 582.6
(2.2) 		619.1
(3) 		472.5
(-0.2) 		500
(0.4) 		379.3
(-2.3) 		346.3
(-3) 		273
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 192.4
(3)
P 		107.7
(-2.7)
P 		104.3
(-3)
P 		103.9
(-3)
P 		89
B 178.5
(3)
P 		96.2
(-2.3)
P 		84.5
(-3)
P 		125.4
(-0.4)
P 		94
C 211.3
(3)
P 		118.3
(-2.6)
P 		124.6
(-2.2)
P 		111.5
(-3)
P 		100
avr 194.1
(3) 		107.4
(-2.8) 		104.5
(-3) 		113.6
(-2.4) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 112.6
(-1.7)
P 		209.5
(3)
P 		95.1
(-2.5)
P 		115.3
(-1.5)
P 		116.6
(-1.5)
P 		85.1
(-3)
P 		124
B 224.1
(3)
P 		200.7
(1.6)
P 		121
(-3)
P 		123.9
(-2.8)
P 		158.3
(-0.8)
P 		130
(-2.5)
P 		103
C 182.7
(1.6)
P 		203
(3)
P 		122.8
(-2.4)
P 		116.1
(-2.9)
P 		117.2
(-2.8)
P 		114.1
(-3)
P 		89
avr 173.1
(1) 		204.4
(3) 		113
(-2.8) 		118.4
(-2.4) 		130.7
(-1.7) 		109.7
(-3) 		95
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192271_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12092
Sequence Type Exemplar sequence
Representative Public ID C24G6.4 NCBI
Target Description C24G6.4 /REP_DB=WormBase Gene ID /WP=CE27727 /GEN=nhr-47 /TR=O76382 /GB=AAC19212.2 /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 RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_072054(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072054 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-47) (nhr-47) mRNA, complete cds. 11/11 A 
SNAP00000033919 ENSEMBL cdna:SNAP chromosome:CEL140:V:5508048:5512430:1 11/11 None
GENEFINDER00000033933 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5508048:5512430:1 11/11 None
C24G6.4 ENSEMBL cdna:known chromosome:CEL140:V:5507908:5512551:1 gene:C24G6.4 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
chrV:5508047-5512430(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-47
Ensembl C24G6.4
Entrez Gene 178933 Entrez gene
SwissProt Q17370 EMBL-EBI
WormBase CE27727 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 Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC19212 Nuclear hormone receptor family protein 47 [Caenorhabditis elegans] ref|NP_504455.1| Nuclear Hormone Receptor family member (nhr-47) [Caenorhabditis elegans] gb|AAO39174.1| nuclear receptor NHR-47 [Caenorhabditis elegans] sp|Q17370|NHR47_CAEEL Nuclear hormone receptor family member nhr-47 gb|AAA93297.1| Steroid hormone receptor-like protein 0.0
blast T33174 hypothetical protein C24G6.4 - Caenorhabditis elegans 0.0
blast CAE64622 Hypothetical protein CBG09380 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.2E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.5E-25
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.7E-42
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.5E-25
Sequence
Target Sequence 
>C. ELEGANS:192271_S_AT
gagacttttgtgtgggtcgtccatcctcctgcaacttgaatgaacgatctatgaaaactg
tttcaatgttggaatcgagaaactttcagtctccaagtgcaaacaattcgagtctttctg
gaataacaccagtcctcacaatgatgatcgatcttgtaatgaaaccattccgccagttga
acttctccacgacagaattcgctctacttcaagcaatcatgttcttcgatccagacaccg
aaggactcgattcggcatcacaaagaaatgttgtagcagaacagaagaaactacttgcag
tgctctttcgtcatttgcaaaaggcttataatccgcaagcggcaagcgagagatacgctt
caattattcttcgaatgccatcgattcggagagccgctgcaaaaaagaatgaatcattgc
aagtgctggatatgcttcaaatgcatgaaattaattctctagtgaaggaaacatcgctcg
gtccgagaccttcaaatgttcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGACTTTTGTGTGGGTCGTCCATC 560 383 1136 Antisense
TCCATCCTCCTGCAACTTGAATGAA 387 589 1155 Antisense
GAATAACACCAGTCCTCACAATGAT 105 327 1256 Antisense
TGAAACCATTCCGCCAGTTGAACTT 405 571 1295 Antisense
GAACTTCTCCACGACAGAATTCGCT 204 351 1314 Antisense
GAATTCGCTCTACTTCAAGCAATCA 207 325 1330 Antisense
TCATGTTCTTCGATCCAGACACCGA 186 623 1352 Antisense
GAAGGACTCGATTCGGCATCACAAA 73 335 1375 Antisense
TGCAGTGCTCTTTCGTCATTTGCAA 703 577 1431 Antisense
AATGCCATCGATTCGGAGAGCCGCT 376 167 1509 Antisense
GGTCCGAGACCTTCAAATGTTCAAC 125 503 1615 Antisense
Sequence Source Affymetrix Proprietary Database