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[178892_at]

Description C38D9.6 /REP_DB=WormBase Gene ID /WP=CE24834 /TR=Q9U3N1 /GB=CAB63437.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 53      4grp_total > 36      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 23
(0.3)
A
37.9
(3)
A
30.1
(1.6)
P
5.3
(-3)
A
33
B 45.4
(3)
M
41.7
(2)
A
24.1
(-2.9)
A
23.7
(-3)
A
22
C 28.8
(-1.1)
A
29.6
(-1)
A
11.1
(-3)
A
67.4
(3)
P
56
avr 32.4
(1.4)
36.4
(3)
21.8
(-3)
32.1
(1.2)
15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 41.6
(3)
A
27
(-0.4)
A
36.5
(1.8)
M
26.4
(-0.5)
P
39
(2.4)
P
15.8
(-3)
A
26
B 25.9
(-2.3)
A
42.2
(-1)
P
89.8
(3)
P
17.6
(-3)
A
33.5
(-1.7)
A
33.4
(-1.7)
P
72
C 26.9
(-3)
M
60
(3)
P
43.1
(-0.1)
P
29.3
(-2.6)
A
35.6
(-1.4)
P
36.4
(-1.3)
P
33
avr 31.5
(-1.7)
43.1
(0.5)
56.5
(3)
24.4
(-3)
36
(-0.8)
28.5
(-2.2)
32
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 8.4
(3)
A
8.2
(2.8)
A
7.9
(2.6)
P
0.8
(-3)
A
8
B 14.5
(3)
M
10.3
(0.3)
A
5.6
(-2.7)
A
5.1
(-3)
A
9
C 9.5
(1.5)
A
8.5
(0.7)
A
3.9
(-3)
A
11.4
(3)
P
8
avr 10.8
(3)
9
(0.8)
5.8
(-3)
5.8
(-3)
5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 7.7
(-0.1)
A
9.6
(1.4)
A
8
(0.2)
M
6.7
(-0.8)
P
11.8
(3)
P
3.8
(-3)
A
8
B 9
(-1.5)
A
14.1
(0.3)
P
21.8
(3)
P
4.7
(-3)
A
13.6
(0.1)
A
12.4
(-0.3)
P
17
C 10
(-1)
M
18.3
(3)
P
11
(-0.5)
P
5.9
(-3)
A
11.5
(-0.3)
P
12.2
(0)
P
12
avr 8.9
(-0.7)
14
(3)
13.6
(2.7)
5.8
(-3)
12.3
(1.8)
9.5
(-0.3)
8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178892_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13885
Sequence Type Exemplar sequence
Representative Public ID C38D9.6 NCBI
Target Description C38D9.6 /REP_DB=WormBase Gene ID /WP=CE24834 /TR=Q9U3N1 /GB=CAB63437.1 /SUBMIT=HINXTON /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_075047(11)
Transcript Assignments
Representative
Transcript
Description Matching Probes Related Probesets by Grade
NM_075047 NCBI Caenorhabditis elegans C38D9.6 (C38D9.6) mRNA, complete cds. 11/11 None
GENEFINDER00000039601 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17561847:17564658:1 11/11 None
C38D9.6 ENSEMBL cdna:known chromosome:CEL140:V:17561847:17564658:1 gene:C38D9.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039586 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:17561846-17564658(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C38D9.6
Entrez Gene 183317 Entrez gene
SwissProt Q9U3N1 EMBL-EBI
WormBase CE24834 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB63437 Hypothetical protein C38D9.6 [Caenorhabditis elegans] ref|NP_507448.1| C38D9.6 [Caenorhabditis elegans] 0.0
blast CAB07206 Hypothetical protein F47H4.7 [Caenorhabditis elegans] ref|NP_507390.1| F47H4.7 [Caenorhabditis elegans] 0.0
blast CAB07211 Hypothetical protein F47H4.4 [Caenorhabditis elegans] ref|NP_507388.1| F47H4.4 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.3E-51
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 5.1E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507448.1 1 575-597
C38D9.6 1 575-597
GENEFINDER00000039601 1 575-597
Sequence
Target Sequence
>C. ELEGANS:178892_AT
aactgcatacttgcaatgccaattgagaatttttttcgcttctcgagatttgacgtttcc
ctgaaatctctatcaaagttagatgcggtattgatccgagagaaactgctaaagtccagt
aattttaaacgtggatgcttcagaatgttcaactatgatccaattgaaattttgaacgta
tttgagcaaaattattcaggaggaacgtctggatcaatcacctacaatgatgaagagtcg
gagttcagaattcattttgatacaatgaactttgaaattattaaatccgaaggaaaaatg
aggagaacagaactctctgccaataattgttcacacatgatatgtttcaacctgataaac
tttaatataatctgttttaatttttttttgttcctatgttgttggaatttttttgaaatt
acgtttgattttaaaaataagaaaagcacatggaaaaagagtttcggcaattctttagtc
tctttgtcgtacaacttcgtttttatcacccgtg


BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position
Strandedness
AACTGCATACTTGCAATGCCAATTG 30 143 1390 Antisense
GAATTTTTTTCGCTTCTCGAGATTT 196 325 1416 Antisense
CGCTTCTCGAGATTTGACGTTTCCC 219 255 1426 Antisense
GTTAGATGCGGTATTGATCCGAGAG 81 447 1467 Antisense
AGAATGTTCAACTATGATCCAATTG 484 75 1531 Antisense
GAGGAGAACAGAACTCTCTGCCAAT 68 405 1689 Antisense
ACTCTCTGCCAATAATTGTTCACAC 472 99 1701 Antisense
ACACATGATATGTTTCAACCTGATA 496 109 1722 Antisense
GTTTCGGCAATTCTTTAGTCTCTTT 669 449 1850 Antisense
TAGTCTCTTTGTCGTACAACTTCGT 256 653 1865 Antisense
TACAACTTCGTTTTTATCACCCGTG 169 641 1879 Antisense
Sequence Source Affymetrix Proprietary Database