[Home] | [Total List]

[180968_at]

Description T04C9.1 /REP_DB=WormBase Gene ID /WP=CE26383 /TR=Q9GP90 /GB=AAG01560.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 39      4grp_highest_8_8 > 44      4grp_high_8_8 > 16      6grp_highest_nonorm > 70      6grp_total > 28      4grp_total > 39      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 379
1 2 3 4 range
A 508.3
(3)
P 		129.2
(-3)
P 		178.6
(-2.2)
P 		301
(-0.3)
P 		379
B 445.2
(3)
P 		219.6
(-3)
P 		231.8
(-2.7)
P 		298.1
(-0.9)
P 		226
C 390.8
(3)
P 		204.5
(-3)
P 		225.7
(-2.3)
P 		279.2
(-0.6)
P 		186
avr 448.1
(3) 		184.4
(-3) 		212
(-2.4) 		292.8
(-0.5) 		264

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 412
1 2 3 4 5 6 range
A 336.4
(0.8)
P 		315.3
(0.2)
P 		186
(-3)
P 		234.4
(-1.8)
P 		285.7
(-0.5)
P 		424.9
(3)
P 		239
B 386.8
(3)
P 		271.9
(0.4)
P 		122.3
(-3)
P 		179.9
(-1.7)
P 		311.3
(1.3)
P 		258.6
(0.1)
P 		265
C 534.5
(3)
P 		274
(-1.9)
P 		297.7
(-1.5)
P 		217.4
(-3)
P 		314.2
(-1.2)
P 		234.7
(-2.7)
P 		317
avr 419.2
(3) 		287.1
(-0.6) 		202
(-3) 		210.6
(-2.8) 		303.7
(-0.2) 		306.1
(-0.1) 		217
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 157
1 2 3 4 range
A 185.1
(3)
P 		28
(-3)
P 		46.7
(-2.3)
P 		44.1
(-2.4)
P 		157
B 142
(3)
P 		54.2
(-3)
P 		53.7
(-3)
P 		63.5
(-2.3)
P 		88
C 129.4
(3)
P 		58.8
(-2.1)
P 		78.7
(-0.7)
P 		47.1
(-3)
P 		82
avr 152.2
(3) 		47
(-3) 		59.7
(-2.3) 		51.6
(-2.7) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 168
1 2 3 4 5 6 range
A 62
(-1.2)
P 		112.1
(3)
P 		40.5
(-3)
P 		59.4
(-1.4)
P 		86.2
(0.8)
P 		103.5
(2.3)
P 		72
B 134.6
(3)
P 		90.5
(0.5)
P 		29.7
(-3)
P 		47.7
(-2)
P 		126.5
(2.5)
P 		96.4
(0.8)
P 		105
C 198.1
(3)
P 		83.6
(-1.4)
P 		75.8
(-1.8)
P 		43.7
(-3)
P 		101.7
(-0.7)
P 		78.6
(-1.6)
P 		154
avr 131.6
(3) 		95.4
(0.4) 		48.7
(-3) 		50.3
(-2.9) 		104.8
(1.1) 		92.8
(0.2) 		83
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180968_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7757
Sequence Type Exemplar sequence
Representative Public ID T04C9.1 NCBI
Target Description T04C9.1 /REP_DB=WormBase Gene ID /WP=CE26383 /TR=Q9GP90 /GB=AAG01560.1 /SUBMIT=ST.LOUIS /CHR=3 /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_171143(10), NM_065905(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171143 NCBI Caenorhabditis elegans T04C9.1a (T04C9.1) mRNA, complete cds. 10/11 A 
NM_065905 NCBI Caenorhabditis elegans T04C9.1c (T04C9.1) mRNA, complete cds. 10/11 A 
GENEFINDER00000038069 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6002661:6005838:1 11/11 None
T04C9.1a ENSEMBL cdna:known chromosome:CEL140:III:5993159:6006302:1 gene:T04C9.1 10/11 A 
T04C9.1c ENSEMBL cdna:known chromosome:CEL140:III:6002661:6005809:1 gene:T04C9.1 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171870 8/11 Cross Hyb Matching Probes A 
SNAP00000038055 8/11 Cross Hyb Matching Probes None
T04C9.1b 8/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175849 3 2 NM_065905 180968_at (10)
NM_171143 174593_at (11), 180968_at (10), 180969_s_at (11)
NM_171870 180969_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5993214-6005837(+) 100.0 100.0
Public Domain and Genome References
Ensembl T04C9.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN65295 Hypothetical protein T04C9.1a [Caenorhabditis elegans] ref|NP_741163.2| T04C9.1a [Caenorhabditis elegans] 0.0
blast AAN65296 Hypothetical protein T04C9.1b [Caenorhabditis elegans] ref|NP_741164.2| T04C9.1b [Caenorhabditis elegans] 0.0
blast CAE64342 Hypothetical protein CBG09025 [Caenorhabditis briggsae] 0.0
blast AAN65297 Hypothetical protein T04C9.1c [Caenorhabditis elegans] ref|NP_498306.3| T04C9.1c [Caenorhabditis elegans] 0.0
blast T29005 hypothetical protein ZK328.3 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Pfam IPR001849 EMBL-EBI Pleckstrin-like 1.5E-8
Pfam IPR000198 EMBL-EBI RhoGAP domain 2.1E-41
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Pfam IPR000198 EMBL-EBI RhoGAP domain 2.1E-41
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Sequence
Target Sequence 
>C. ELEGANS:180968_AT
cactaaactctcttggatcatttggatcagtcggtgatgaatcgacggcaaccgttgtgg
cggctcctgatgggttcgggaaatcaattgtaaaacccaaatacagtgtgtcctatgcat
ccacatacaatcggattcctgctgactcatcaaaattgacttcatccatatcatgcacca
cagtcgactcaaccggcgtcgtcgagacttcattcacatcgctgacacggcaaaactatc
tacgtggcacgttggactcatcatcgatgggaacgacgtataagtatttaaggtatccaa
aattccgacgcgtaaaaacactgtacgcctgcacgccggatcatcattcagagctttcat
ttgagcccggtcaaattattacaaacgtgtacgaatcgaatgaggacggatggcttgtcg
ggacgctgaacggcaagactggtctgataccttcgaattatgtggagccccttccatttt
ttgtttctctcattgtttccatctctctggccagttcactttgtgatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACTAAACTCTCTTGGATCATTTGG 561 197 2192 Antisense
AATCGACGGCAACCGTTGTGGCGGC 672 149 2231 Antisense
CGGCTCCTGATGGGTTCGGGAAATC 411 239 2252 Antisense
AATACAGTGTGTCCTATGCATCCAC 668 169 2291 Antisense
GCATCCACATACAATCGGATTCCTG 412 309 2308 Antisense
TAAGGTATCCAAAATTCCGACGCGT 291 637 2480 Antisense
TCGGGACGCTGAACGGCAAGACTGG 376 605 2609 Antisense
GCAAGACTGGTCTGATACCTTCGAA 701 309 2624 Antisense
TACCTTCGAATTATGTGGAGCCCCT 249 643 2639 Antisense
TTTTTGTTTCTCTCATTGTTTCCAT 357 675 2669 Antisense
CTCTGGCCAGTTCACTTTGTGATCA 133 233 2696 Antisense
Sequence Source Affymetrix Proprietary Database