[Home] | [Total List]

[186160_at]

Description Y48C3A.12 /REP_DB=WormBase Gene ID /WP=CE24380 /TR=Q9U290 /GB=CAB60420.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 28      4grp_total > 29      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 12.6
(0.1)
A 		9.1
(-2.2)
A 		7.8
(-3)
A 		17.2
(3)
A 		9
B 11
(0.3)
A 		10.9
(0.2)
A 		7
(-3)
A 		14.3
(3)
A 		7
C 16.4
(3)
A 		11.1
(-0.8)
A 		8.2
(-2.9)
A 		8.1
(-3)
A 		8
avr 13.3
(3) 		10.4
(-0.1) 		7.7
(-3) 		13.2
(2.9) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 10.8
(3)
A 		8.5
(1.1)
A 		3.7
(-3)
A 		6
(-1.1)
A 		5.1
(-1.8)
A 		7.3
(0)
A 		7
B 12.3
(3)
A 		4.1
(-2.3)
A 		3
(-3)
A 		4.7
(-1.9)
A 		5.9
(-1.1)
A 		6
(-1.1)
A 		9
C 11.3
(3)
A 		8.3
(0.9)
A 		2.6
(-3)
A 		6.2
(-0.5)
A 		4.8
(-1.5)
A 		7.2
(0.2)
A 		9
avr 11.5
(3) 		7
(-0.2) 		3.1
(-3) 		5.6
(-1.2) 		5.3
(-1.4) 		6.8
(-0.4) 		8
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 4.6
(3)
A 		2
(-3)
A 		2
(-3)
A 		2.5
(-1.8)
A 		3
B 3.5
(3)
A 		2.7
(0.5)
A 		1.6
(-3)
A 		3.1
(1.7)
A 		2
C 5.4
(3)
A 		3.2
(-0.3)
A 		2.9
(-0.8)
A 		1.4
(-3)
A 		4
avr 4.5
(3) 		2.6
(-2) 		2.2
(-3) 		2.3
(-2.7) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 2
(0.3)
A 		3
(3)
A 		0.8
(-3)
A 		1.5
(-1.1)
A 		1.5
(-1.1)
A 		1.8
(-0.3)
A 		2
B 4.3
(3)
A 		1.3
(-2)
A 		0.7
(-3)
A 		1.2
(-2.2)
A 		2.4
(-0.2)
A 		2.2
(-0.5)
A 		4
C 4.2
(3)
A 		2.5
(0.1)
A 		0.7
(-3)
A 		1.2
(-2.1)
A 		1.6
(-1.5)
A 		2.4
(-0.1)
A 		4
avr 3.5
(3) 		2.3
(0.4) 		0.7
(-3) 		1.3
(-1.7) 		1.8
(-0.6) 		2.1
(0) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186160_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2945
Sequence Type Exemplar sequence
Representative Public ID Y48C3A.12 NCBI
Target Description Y48C3A.12 /REP_DB=WormBase Gene ID /WP=CE24380 /TR=Q9U290 /GB=CAB60420.1 /SUBMIT=HINXTON /CHR=2 /FEA=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_064419(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064419 NCBI Caenorhabditis elegans Y48C3A.12 (Y48C3A.12) mRNA, complete cds. 11/11 None
GENEFINDER00000006658 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13369503:13383806:1 11/11 None
Y48C3A.12 ENSEMBL cdna:known chromosome:CEL140:II:13376308:13388658:1 gene:Y48C3A.12 11/11 A 
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
chrII:13376315-13383803(+) 96.22 100.0
Public Domain and Genome References
Gene Title
Ensembl Y48C3A.12
Entrez Gene 190022 Entrez gene
SwissProt Q9U290 EMBL-EBI
WormBase CE35370 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60420 Hypothetical protein Y48C3A.12 [Caenorhabditis elegans] ref|NP_496820.3| Y48C3A.12 [Caenorhabditis elegans] 0.0
blast T31597 hypothetical protein Y48C3A.o - Caenorhabditis elegans 0.0
blast T31596 hypothetical protein Y48C3A.n - Caenorhabditis elegans 0.0
blast CAB60423 Hypothetical protein Y48C3A.20 [Caenorhabditis elegans] ref|NP_496819.1| Y48C3A.20 [Caenorhabditis elegans] 0.0
blast T31597 hypothetical protein Y48C3A.o - Caenorhabditis elegans 1.0E-167
blast CAE73355 Hypothetical protein CBG20787 [Caenorhabditis briggsae] 1.0E-106
Protein Domains
Database ID Description E-Value
Pfam IPR000580 EMBL-EBI TSC-22 / Dip / Bun 6.1E-15
Pfam IPR000580 EMBL-EBI TSC-22 / Dip / Bun 6.1E-15
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000006658 2 597-619,626-648
Sequence
Target Sequence 
>C. ELEGANS:186160_AT
tcatgataactgtgtcgtcggcggccgcggcgttggagaagaaggaggaggccgcctttg
cagcagcaggaagcctcgactcatgcgggatcccaatctccggaggaggagccgccgcac
aaacctctgcaccccactcaacaccctacggtaccccaaaggacacgcatatccagcagc
agcagcagccagtggtatttgaagagattctcactgcaaatggacccccaccgcagccgt
cttctccactactaccagctctcattacaactacaacaagtgctccaacaattgctccag
catcgtctccgatcatcaatgcttctggatcatcgattccagcagcttcaacgtctggaa
tctcattatttcccagtggtggtgtcacatcgtcactgacaactccatcgacgactgctg
acacacatacaccgattgataataagattgagcaggcgatggagcttgtcaagact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATGATAACTGTGTCGTCGGCGGC 300 623 920 Antisense
GGGATCCCAATCTCCGGAGGAGGAG 17 495 1006 Antisense
TACGGTACCCCAAAGGACACGCATA 551 643 1066 Antisense
TACTACCAGCTCTCATTACAACTAC 8 647 1169 Antisense
GCATCGTCTCCGATCATCAATGCTT 346 309 1219 Antisense
TGGATCATCGATTCCAGCAGCTTCA 184 549 1245 Antisense
CAGCAGCTTCAACGTCTGGAATCTC 594 203 1259 Antisense
GTGGTGGTGTCACATCGTCACTGAC 400 489 1295 Antisense
CGTCACTGACAACTCCATCGACGAC 108 247 1310 Antisense
TGCTGACACACATACACCGATTGAT 185 583 1335 Antisense
GCAGGCGATGGAGCTTGTCAAGACT 75 311 1371 Antisense
Sequence Source Affymetrix Proprietary Database