[Home] | [Total List]

[190468_s_at]

Description C17H11.3 /REP_DB=WormBase Gene ID /WP=CE08291 /TR=P91062 /GB=AAB37984.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 20      4grp_total > 01      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 8.4
(1.4)
A 		1
(-3)
A 		10.8
(2.9)
A 		11
(3)
A 		10
B 9.9
(3)
A 		2
(-3)
A 		4.9
(-0.8)
A 		6.8
(0.6)
A 		8
C 2.9
(-2.9)
A 		3
(-2.9)
A 		1.6
(-3)
A 		68.3
(3)
P 		67
avr 7.1
(-1.9) 		2
(-3) 		5.8
(-2.1) 		28.7
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 1.9
(-2.5)
A 		7
(0.2)
A 		2.2
(-2.3)
A 		12.4
(3)
A 		1.3
(-2.8)
A 		0.9
(-3)
A 		12
B 1.1
(-2.9)
A 		2.4
(-1.6)
A 		3.7
(-0.3)
A 		6.9
(3)
A 		2
(-2)
A 		1
(-3)
A 		6
C 1
(-3)
A 		14
(3)
A 		10.9
(1.6)
A 		1.7
(-2.7)
A 		1.3
(-2.9)
A 		13
(2.5)
A 		13
avr 1.3
(-3) 		7.8
(3) 		5.6
(1) 		7
(2.3) 		1.5
(-2.8) 		5
(0.4) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 3.1
(3)
A 		0.2
(-3)
A 		2.8
(2.4)
A 		1.6
(-0.1)
A 		3
B 3.2
(3)
A 		0.5
(-3)
A 		1.1
(-1.7)
A 		1.4
(-1)
A 		3
C 1
(-2.8)
A 		0.9
(-2.8)
A 		0.6
(-3)
A 		11.5
(3)
P 		11
avr 2.4
(-0.3) 		0.5
(-3) 		1.5
(-1.6) 		4.8
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 0.4
(-2.6)
A 		2.5
(1.6)
A 		0.5
(-2.4)
A 		3.2
(3)
A 		0.4
(-2.6)
A 		0.2
(-3)
A 		3
B 0.4
(-3)
A 		0.8
(-1.3)
A 		0.9
(-0.9)
A 		1.8
(3)
A 		0.8
(-1.3)
A 		0.4
(-3)
A 		1
C 0.4
(-2.9)
A 		4.3
(2.9)
A 		2.8
(0.7)
A 		0.3
(-3)
A 		0.4
(-2.9)
A 		4.4
(3)
A 		4
avr 0.4
(-3) 		2.5
(3) 		1.4
(-0.1) 		1.8
(1) 		0.5
(-2.7) 		1.7
(0.7) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190468_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17294
Sequence Type Exemplar sequence
Representative Public ID C17H11.3 NCBI
Target Description C17H11.3 /REP_DB=WormBase Gene ID /WP=CE08291 /TR=P91062 /GB=AAB37984.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse transcriptase
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_066459(11), NM_076976(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066459 NCBI Caenorhabditis elegans ZK1236.4 (ZK1236.4) mRNA, complete cds. 11/11 None
NM_076976 NCBI Caenorhabditis elegans C17H11.3 (C17H11.3) mRNA, complete cds. 11/11 None
GENEFINDER00000009234 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8166273:8169419:-1 11/11 None
Y6B3B.2 ENSEMBL cdna:pseudogene chromosome:CEL140:I:13722416:13725034:1 gene:Y6B3B.2 11/11 None
ZK1236.4 ENSEMBL cdna:known chromosome:CEL140:III:8414550:8415644:1 gene:ZK1236.4 11/11 None
C17H11.3 ENSEMBL cdna:known chromosome:CEL140:X:8166273:8168223:-1 gene:C17H11.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000043761 6/11 Cross Hyb Matching Probes None
C43D7.1 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13722013-13724965(+) 96.83 98.67
chrV:19330295-19331454(+) 72.62 72.62
chrIII:8414539-8415640(+) 67.62 67.62
chrIII:1358225-1359170(+) 59.32 59.32
chrX:8166271-8168222(-) 98.16 100.0
Public Domain and Genome References
Ensembl Y6B3B.2
ZK1236.4
C17H11.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498860 ZK1236.4 [Caenorhabditis elegans] sp|P34620|YO84_CAEEL Hypothetical protein ZK1236.4 in chromosome III 0.0
blast NP_509377 C17H11.3 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.0E-55
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.0E-41
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.0E-55
Sequence
Target Sequence 
>C. ELEGANS:190468_S_AT
acggaccactggaaaaagactatcaatctcacaaaataccaactattccaaatcttcaac
acttactctagtaaaagcgtaaagcttatgacattactctataaaactttcataaggcct
agactagaatatggcacagtaatcactagtccaagtaagaaaaacgactcaaaagctata
gaatcagtacaaaacgcgtttacgagaaggctttacagtagaatgaagggtagatacatc
agaccagatgacaaagattacaaatcggcctcggaaagaaatgaattatttaagctctca
acgttagaaaatagaagattagcaattgataaaaaactcatatcccacatgatgactggg
aaaataggtcttgaaacgtctgaatttttcaactttactgaaaatacacgtacacgttcg
aaatataaattctcttggggcaagtgcaaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGGACCACTGGAAAAAGACTATCA 135 91 1078 Antisense
GCGTAAAGCTTATGACATTACTCTA 39 291 1154 Antisense
AAAACTTTCATAAGGCCTAGACTAG 297 127 1180 Antisense
TATGGCACAGTAATCACTAGTCCAA 369 655 1207 Antisense
GAATCAGTACAAAACGCGTTTACGA 484 327 1258 Antisense
GAAGGGTAGATACATCAGACCAGAT 483 333 1302 Antisense
AATGAATTATTTAAGCTCTCAACGT 500 165 1357 Antisense
AACTCATATCCCACATGATGACTGG 440 141 1412 Antisense
ATAGGTCTTGAAACGTCTGAATTTT 658 19 1441 Antisense
GAAAATACACGTACACGTTCGAAAT 316 353 1477 Antisense
AATTCTCTTGGGGCAAGTGCAAAAC 311 165 1505 Antisense
Sequence Source Affymetrix Proprietary Database