[Home] | [Total List]

[178809_at]

Description Y6B3B.3 /REP_DB=WormBase Gene ID /WP=CE20178 /TR=Q9XWE7 /GB=CAA21726.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 84      4grp_total > 56      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 1.6
(-3)
A 		2.9
(-1.6)
A 		7.3
(3)
A 		3.2
(-1.3)
A 		6
B 1.8
(-3)
A 		2.8
(-1.4)
A 		5.5
(3)
A 		2.9
(-1.2)
A 		4
C 3.2
(-2.5)
A 		2.3
(-3)
A 		13.9
(3)
A 		3.4
(-2.4)
A 		12
avr 2.2
(-3) 		2.7
(-2.6) 		8.9
(3) 		3.2
(-2.1) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 4.1
(-0)
A 		4.9
(1.1)
A 		3.4
(-1)
A 		2
(-3)
A 		6.2
(3)
A 		4
(-0.1)
A 		4
B 2.8
(-2.7)
A 		1.5
(-3)
A 		10.7
(-0.6)
A 		24.2
(3)
A 		4.7
(-2.2)
A 		2.3
(-2.8)
A 		23
C 5.1
(-2.2)
A 		2.4
(-3)
A 		2.3
(-3)
A 		8.3
(-1.3)
A 		23.2
(3)
A 		18.6
(1.7)
A 		21
avr 4
(-2.2) 		2.9
(-3) 		5.5
(-1.2) 		11.5
(3) 		11.4
(2.9) 		8.3
(0.8) 		9
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 0.6
(-2.6)
A 		0.6
(-2.6)
A 		1.9
(3)
A 		0.5
(-3)
A 		1
B 0.6
(-3)
A 		0.7
(-2.1)
A 		1.3
(3)
A 		0.6
(-3)
A 		1
C 1.1
(-2.3)
A 		0.7
(-2.9)
A 		4.9
(3)
A 		0.6
(-3)
A 		4
avr 0.8
(-2.4) 		0.7
(-2.7) 		2.7
(3) 		0.6
(-3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 0.7
(-2.1)
A 		1.8
(2.6)
A 		0.7
(-2.1)
A 		0.5
(-3)
A 		1.9
(3)
A 		1
(-0.9)
A 		1
B 1
(-2.5)
A 		0.5
(-3)
A 		2.6
(-0.9)
A 		6.4
(3)
A 		1.9
(-1.6)
A 		0.9
(-2.6)
A 		6
C 1.9
(-1.9)
A 		0.7
(-2.9)
A 		0.6
(-3)
A 		1.7
(-2)
A 		7.5
(3)
A 		6.2
(1.9)
A 		7
avr 1.2
(-2.6) 		1
(-3) 		1.3
(-2.4) 		2.9
(1.1) 		3.8
(3) 		2.7
(0.6) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178809_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.871
Sequence Type Exemplar sequence
Representative Public ID Y6B3B.3 NCBI
Target Description Y6B3B.3 /REP_DB=WormBase Gene ID /WP=CE20178 /TR=Q9XWE7 /GB=CAA21726.1 /SUBMIT=HINXTON /CHR=1 /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_061000(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061000 NCBI Caenorhabditis elegans Y6B3B.3 (Y6B3B.3) mRNA, complete cds. 11/11 None
GENEFINDER00000043761 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13717912:13727646:1 10/11 None
SNAP00000043746 ENSEMBL cdna:SNAP chromosome:CEL140:I:13726626:13727646:1 9/11 None
Y6B3B.3 ENSEMBL cdna:known chromosome:CEL140:I:13720903:13727646:1 gene:Y6B3B.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043745 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13720833-13727577(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y6B3B.3
Entrez Gene 189367 Entrez gene
SwissProt Q9XWE7 EMBL-EBI
WormBase CE20178 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21726 Hypothetical protein Y6B3B.3 [Caenorhabditis elegans] ref|NP_493401.1| Y6B3B.3 [Caenorhabditis elegans] 0.0
blast NP_509377 C17H11.3 [Caenorhabditis elegans] 1.0E-180
blast NP_500227 Y69A2AR.10 [Caenorhabditis elegans] 1.0E-178
blast AAK71388 Hypothetical protein M70.3a [Caenorhabditis elegans] ref|NP_500179.1| M70.3a [Caenorhabditis elegans] 2.0E-43
blast AAK71389 Hypothetical protein M70.3b [Caenorhabditis elegans] ref|NP_500180.1| M70.3b [Caenorhabditis elegans] 2.0E-43
blast CAA21726 Hypothetical protein Y6B3B.3 [Caenorhabditis elegans] ref|NP_493401.1| Y6B3B.3 [Caenorhabditis elegans] 3.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.4E-67
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493401.1 1 811-833
Y6B3B.3 1 811-833
GENEFINDER00000043761 1 1361-1383
SNAP00000043746 1 2-24
Sequence
Target Sequence 
>C. ELEGANS:178809_AT
tcaacggctggtggcaagtctggaaaaggaagtaaaaatggcggaaaaacctcatctgat
tcttccaacatgggtctaatcattggtatcgtggtcgtagttgtactgattcttgctttt
gctggtttcactgttgcgtggcgccttggactcttcaaatgtcttcccccgttccccccg
tttccttggaagaaaccgaagggtgggaagaaaccgaagggggatgatgattcaaagaag
aaggaaaactcgaaaattgagaaccctaagaaaagttctgcatcgaaggaatcaacgaat
acgggacgttcgaagataattacgacgactgacccgaaaactggcaaggcaactaaggag
aagaagaagcaaaagaagggtgacaagacggttcaggaaaaatttgtggttgttaatgag
ttgacagtggatcctactatggaaacaaagaccctcgacggaacacagcttgatactgta
gatggtggtcgtgatcggtttgtcatatctagagagtttatgagaaatcaagtaattttc
agcaagaagaagaagatcacgaaagaagagtttttcgagagccaaagcgacgatactacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACGGCTGGTGGCAAGTCTGGAA 193 629 2371 Antisense
CTCATCTGATTCTTCCAACATGGGT 547 227 2421 Antisense
GGGTCTAATCATTGGTATCGTGGTC 312 495 2442 Antisense
GTATCGTGGTCGTAGTTGTACTGAT 132 455 2456 Antisense
GTACTGATTCTTGCTTTTGCTGGTT 482 459 2473 Antisense
TTTGCTGGTTTCACTGTTGCGTGGC 529 667 2488 Antisense
CTTGGACTCTTCAAATGTCTTCCCC 619 213 2515 Antisense
GACGACTGACCCGAAAACTGGCAAG 30 379 2694 Antisense
CCCTCGACGGAACACAGCTTGATAC 248 259 2822 Antisense
TGGTGGTCGTGATCGGTTTGTCATA 267 553 2853 Antisense
CGAGAGCCAAAGCGACGATACTACC 68 249 2946 Antisense
Sequence Source Affymetrix Proprietary Database