[Home] | [Total List]

[175574_at]

Description CEXT00386 /REP_DB=TREMBL Accession /GB=M79849 /CHR=4 /FEA=Genomic Cluster /DEF=wEST00386 Mixed stage, Stratagene (cat. no. 937006) Caenorhabditis elegans cDNA clone CEMSE59, mRNA sequence.
Cluster 6grp_total > 88      4grp_total > 41      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 45.8
(-2.6)
A 		93.9
(1)
A 		119.9
(3)
A 		40.5
(-3)
A 		79
B 43.6
(-1.7)
A 		100.6
(2.4)
A 		25
(-3)
A 		108.9
(3)
A 		84
C 62.4
(-1.2)
A 		48.1
(-3)
A 		97.1
(3)
P 		67.8
(-0.6)
A 		49
avr 50.6
(-3) 		80.9
(3) 		80.7
(3) 		72.4
(1.3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1640
1 2 3 4 5 6 range
A 60
(-3)
A 		56.5
(-3)
A 		70.7
(-2.9)
A 		165.9
(-2.6)
P 		752.8
(-0.4)
P 		1683.1
(3)
P 		1627
B 42.9
(-3)
A 		74.2
(-2.9)
A 		54.2
(-3)
P 		151.8
(-2.6)
P 		868.5
(0.2)
P 		1605.1
(3)
P 		1562
C 62.5
(-3)
A 		54.3
(-3)
A 		111.1
(-2.8)
P 		178.5
(-2.5)
P 		993.8
(1.1)
P 		1426.5
(3)
P 		1372
avr 55.1
(-3) 		61.7
(-3) 		78.7
(-2.9) 		165.4
(-2.6) 		871.7
(0.2) 		1571.6
(3) 		1517
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 16.7
(-0.4)
A 		20.4
(0.4)
A 		31.3
(3)
A 		5.9
(-3)
A 		25
B 13.9
(-0.4)
A 		24.8
(3)
A 		5.8
(-3)
A 		23.2
(2.5)
A 		19
C 20.7
(-0.5)
A 		13.8
(-2.4)
A 		33.8
(3)
P 		11.4
(-3)
A 		22
avr 17.1
(-0.9) 		19.7
(0.7) 		23.6
(3) 		13.5
(-3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 587
1 2 3 4 5 6 range
A 11.1
(-3)
A 		20.1
(-2.9)
A 		15.4
(-2.9)
A 		42.1
(-2.5)
P 		227.2
(0.3)
P 		409.8
(3)
P 		399
B 14.9
(-3)
A 		24.7
(-2.9)
A 		13.2
(-3)
P 		40.2
(-2.7)
P 		352.9
(0.5)
P 		598.5
(3)
P 		585
C 23.2
(-2.9)
A 		16.6
(-3)
A 		28.3
(-2.8)
P 		35.9
(-2.7)
P 		321.6
(1)
P 		477.5
(3)
P 		461
avr 16.4
(-3) 		20.5
(-2.9) 		19
(-3) 		39.4
(-2.7) 		300.6
(0.6) 		495.3
(3) 		479
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175574_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21578
Sequence Type Exemplar sequence
Representative Public ID CEXT00386 NCBI
Target Description CEXT00386 /REP_DB=TREMBL Accession /GB=M79849 /CHR=4 /FEA=Genomic Cluster /DEF=wEST00386 Mixed stage, Stratagene (cat. no. 937006) Caenorhabditis elegans cDNA clone CEMSE59, mRNA sequence.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_171363(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171363 NCBI Caenorhabditis elegans Y73B6BL.38 (Y73B6BL.38) mRNA, complete cds. 11/11 None
SNAP00000032059 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6421159:6423293:1 11/11 None
GENEFINDER00000032097 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6419513:6423293:1 11/11 None
Y73B6BL.38 ENSEMBL cdna:known chromosome:CEL140:IV:6421588:6423434:1 gene:Y73B6BL.38 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:6423035-6423412(+) 92.84 100.0
chrIV:13510360-13510756(-) 84.08 90.19
Public Domain and Genome References
Gene Title
Ensembl Y73B6BL.38
Entrez Gene 177406 Entrez gene
SwissProt Q8IU00 EMBL-EBI
WormBase CE31128 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAN63424 Hypothetical protein Y73B6BL.38 [Caenorhabditis elegans] ref|NP_741425.1| Y73B6BL.38 [Caenorhabditis elegans] 0.0
blast CAB63369 Hypothetical protein Y45F10A.2 [Caenorhabditis elegans] ref|NP_502606.1| PUF (Pumilio/FBF) domain-containing family member (puf-3) [Caenorhabditis elegans] 0.0
blast CAE58607 Hypothetical protein CBG01774 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 2.4E-6
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 2.9E-5
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 2.4E-6
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 2.9E-5
Pfam IPR003511 EMBL-EBI DNA-binding HORMA 7.2E-58
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 2.4E-6
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 2.9E-5
Sequence
Target Sequence 
>C. ELEGANS:175574_AT
ctacattccacatccagataccaatcgcgatgctctcgacattctgctcttccatcaata
tggaaactacgttgttcagaagatgatccagatttgtgttctcggtcagaatgctcgaga
tcagaagcaagcggagatgtacggcatgtggctcgagaagattcgcgaacgagtcatgcg
aaacgccaatcgcctcgaaagattctcgtcgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTACATTCCACATCCAGATACCAAT 278 227 21 Antisense
TCCACATCCAGATACCAATCGCGAT 502 587 27 Antisense
TCCAGATACCAATCGCGATGCTCTC 689 589 33 Antisense
CAGATACCAATCGCGATGCTCTCGA 555 205 35 Antisense
GAATGCTCGAGATCAGAAGCAAGCG 254 331 129 Antisense
CAGAAGCAAGCGGAGATGTACGGCA 436 203 142 Antisense
GGCTCGAGAAGATTCGCGAACGAGT 78 539 170 Antisense
GCGAACGAGTCATGCGAAACGCCAA 193 287 185 Antisense
AGTCATGCGAAACGCCAATCGCCTC 325 61 192 Antisense
TGCGAAACGCCAATCGCCTCGAAAG 121 583 197 Antisense
AATCGCCTCGAAAGATTCTCGTCGG 528 167 208 Antisense
Sequence Source Affymetrix Proprietary Database