[Home] | [Total List]

[182712_at]

Description C49G7.4 /REP_DB=WormBase Gene ID /WP=CE08862 /TR=O16225 /GB=AAK18899.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 70      6grp_total > 05      4grp_total > 52      6grp_highest_sub > De      6grp_high1_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 520
1 2 3 4 range
A 514.5
(3)
P 		512.2
(3)
P 		453.8
(2.1)
P 		94.9
(-3)
P 		420
B 478
(3)
P 		420
(2.2)
P 		365.9
(1.4)
P 		67.7
(-3)
P 		410
C 550.7
(2.8)
P 		569.6
(3)
P 		409.9
(1.2)
P 		49.2
(-3)
P 		520
avr 514.4
(3) 		500.6
(2.8) 		409.9
(1.6) 		70.6
(-3) 		444

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 462
1 2 3 4 5 6 range
A 445.2
(3)
P 		356.8
(1.6)
P 		170.5
(-1.5)
P 		134.1
(-2.1)
P 		249
(-0.2)
P 		77.4
(-3)
P 		368
B 523.9
(3)
P 		379.8
(1)
P 		160.4
(-2)
P 		196.2
(-1.5)
P 		237.8
(-0.9)
P 		84.8
(-3)
P 		439
C 423.3
(3)
P 		365.7
(2)
P 		216.9
(-0.4)
P 		151.3
(-1.5)
P 		242.9
(0)
P 		61.7
(-3)
P 		362
avr 464.1
(3) 		367.4
(1.5) 		182.6
(-1.3) 		160.5
(-1.7) 		243.2
(-0.4) 		74.6
(-3) 		390
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 187.3
(3)
P 		111.2
(0.4)
P 		118.6
(0.6)
P 		13.9
(-3)
P 		173
B 152.4
(3)
P 		103.7
(0.9)
P 		84.8
(0.1)
P 		14.4
(-3)
P 		138
C 182.3
(3)
P 		163.8
(2.4)
P 		142.8
(1.6)
P 		8.3
(-3)
P 		174
avr 174
(3) 		126.2
(1.2) 		115.4
(0.8) 		12.2
(-3) 		162

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 82.1
(0.5)
P 		126.9
(3)
P 		37.1
(-2)
P 		34
(-2.2)
P 		75.1
(0.1)
P 		18.9
(-3)
P 		108
B 182.3
(3)
P 		126.4
(0.8)
P 		39
(-2.7)
P 		52
(-2.2)
P 		96.6
(-0.4)
P 		31.6
(-3)
P 		151
C 156.9
(3)
P 		111.6
(1)
P 		55.2
(-1.5)
P 		30.4
(-2.6)
P 		78.6
(-0.4)
P 		20.7
(-3)
P 		136
avr 140.4
(3) 		121.6
(2) 		43.8
(-2) 		38.8
(-2.2) 		83.4
(0.1) 		23.7
(-3) 		117
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182712_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14922
Sequence Type Exemplar sequence
Representative Public ID C49G7.4 NCBI
Target Description C49G7.4 /REP_DB=WormBase Gene ID /WP=CE08862 /TR=O16225 /GB=AAK18899.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071728(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071728 NCBI Caenorhabditis elegans C49G7.4 (C49G7.4) mRNA, complete cds. 11/11 A 
SNAP00000008207 ENSEMBL cdna:SNAP chromosome:CEL140:V:4043766:4044610:1 11/11 None
GENEFINDER00000008213 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4043766:4044610:1 11/11 None
C49G7.4 ENSEMBL cdna:known chromosome:CEL140:V:4043729:4044764:1 gene:C49G7.4 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
chrV:4043765-4044610(+) 100.0 100.0
chrV:4046254-4047099(+) 93.57 93.57
Public Domain and Genome References
Gene Title
Ensembl C49G7.4
Entrez Gene 178809 Entrez gene
SwissProt O16225 EMBL-EBI
WormBase CE08862 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK18899 Hypothetical protein C49G7.4 [Caenorhabditis elegans] ref|NP_504129.1| C49G7.4 [Caenorhabditis elegans] 1.0E-130
blast AAK18898 Hypothetical protein C49G7.3 [Caenorhabditis elegans] ref|NP_504130.1| C49G7.3 [Caenorhabditis elegans] 1.0E-126
blast CAE58296 Hypothetical protein CBG01404 [Caenorhabditis briggsae] 1.0E-105
Protein Domains
Database ID Description E-Value
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 2.5
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 2.3E-10
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 1.6E-14
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 1.9E-9
Sequence
Target Sequence 
>C. ELEGANS:182712_AT
gctcgaatgccatttccgattcatcctgtgcagctctctacccagcttctgatccagcta
ccggttacccagctccaggaaatgatgttgaaagaccatttgcttgctacacaactgcca
ctccaactcctgctccagttgttccagacatgagatctgctgctttgaaaaattgtgcca
ggacttgtggattgtgctgtaagacggctgactttgactgcccaaatgttcaattcccac
gtctgacgtgctccaccattaccaatgaacagtgccgttcttctgtctggcgtaccatca
tcgctactgattgcccatcagcctgcggattctgtaaccaaggaggatgtgtcgatggag
tcatggattgtgctaatgatctttccatttgtaactcagttggaatgcaagaatttgtca
accaatactgtcaaagaactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCGAATGCCATTTCCGATTCATC 287 299 140 Antisense
TCGAATGCCATTTCCGATTCATCCT 397 601 142 Antisense
ATTGTGCTGTAAGACGGCTGACTTT 368 3 330 Antisense
TAAGACGGCTGACTTTGACTGCCCA 372 637 339 Antisense
TGACTTTGACTGCCCAAATGTTCAA 252 571 348 Antisense
CGTGCTCCACCATTACCAATGAACA 588 245 386 Antisense
TTACCAATGAACAGTGCCGTTCTTC 159 639 398 Antisense
TGGAGTCATGGATTGTGCTAATGAT 237 549 495 Antisense
ATTGTGCTAATGATCTTTCCATTTG 307 5 506 Antisense
GATCTTTCCATTTGTAACTCAGTTG 490 419 517 Antisense
GTCAACCAATACTGTCAAAGAACTT 381 461 556 Antisense
Sequence Source Affymetrix Proprietary Database