[Home] | [Total List]

[188114_at]

Description C47C12.6 /REP_DB=WormBase Gene ID /WP=CE24854 /GEN=deg-1 /TR=Q94181 /GB=AAB07575.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 39      4grp_total > 13      6grp_cgc > 99      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 107.9
(1.8)
P 		57.3
(-1.2)
A 		27.1
(-3)
A 		128.6
(3)
P 		102
B 65
(-1.5)
P 		59.6
(-1.8)
A 		39
(-3)
A 		142.4
(3)
P 		103
C 83.3
(-0.3)
P 		59.4
(-2.2)
A 		49.2
(-3)
A 		123.9
(3)
P 		75
avr 85.4
(0) 		58.8
(-1.7) 		38.4
(-3) 		131.6
(3) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 91.5
(2.6)
M 		30.4
(-3)
A 		40.8
(-2.1)
A 		62.1
(-0.1)
A 		96.4
(3)
P 		43.1
(-1.8)
M 		66
B 62.3
(1.6)
A 		33.6
(-3)
P 		71.2
(3)
P 		67.4
(2.4)
P 		56.5
(0.7)
P 		65.3
(2.1)
P 		38
C 42.9
(-1.6)
M 		110.8
(3)
P 		44.1
(-1.5)
A 		21.6
(-3)
A 		68.3
(0.1)
P 		70.4
(0.3)
P 		89
avr 65.6
(0.9) 		58.3
(-1) 		52
(-2.6) 		50.4
(-3) 		73.7
(3) 		59.6
(-0.6) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 39.3
(3)
P 		12.4
(-2)
A 		7.1
(-3)
A 		18.8
(-0.8)
P 		32
B 20.7
(0.3)
P 		14.7
(-1.4)
A 		9
(-3)
A 		30.3
(3)
P 		21
C 27.6
(3)
P 		17.1
(-3)
A 		17.2
(-2.9)
A 		20.9
(-0.8)
P 		11
avr 29.2
(3) 		14.7
(-1.8) 		11.1
(-3) 		23.3
(1) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 16.9
(-0.6)
M 		10.8
(-2.4)
A 		8.9
(-3)
A 		15.8
(-1)
A 		29.1
(3)
P 		10.5
(-2.5)
M 		20
B 21.7
(1.8)
A 		11.2
(-3)
P 		17.3
(-0.2)
P 		17.8
(0)
P 		23
(2.4)
P 		24.4
(3)
P 		13
C 15.9
(-0.7)
M 		33.8
(3)
P 		11.2
(-1.6)
A 		4.4
(-3)
A 		22.1
(0.6)
P 		23.6
(0.9)
P 		29
avr 18.2
(-0.2) 		18.6
(0) 		12.5
(-3) 		12.7
(-2.9) 		24.7
(3) 		19.5
(0.4) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188114_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16702
Sequence Type Exemplar sequence
Representative Public ID C47C12.6 NCBI
Target Description C47C12.6 /REP_DB=WormBase Gene ID /WP=CE24854 /GEN=deg-1 /TR=Q94181 /GB=AAB07575.1 /SUBMIT=ST.LOUIS /CHR=X /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_076910(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076910 NCBI Caenorhabditis elegans DEGeneration of certain neurons family member (deg-1) (deg-1) mRNA, complete cds. 11/11 None
C47C12.6 ENSEMBL cdna:known chromosome:CEL140:X:7763148:7774756:1 gene:C47C12.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000014389 4/11 Cross Hyb Matching Probes None
SNAP00000037135 7/11 Cross Hyb Matching Probes None
GENEFINDER00000037138 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:7763156-7774613(+) 98.5 100.0
Public Domain and Genome References
Gene Title
Gene Symbol deg-1
Ensembl C47C12.6
Entrez Gene 181035 Entrez gene
SwissProt P24585 EMBL-EBI
WormBase CE24854 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.27081.1.S1_AT similar to sodium channel, nonvoltage-gated 1, gamma cfa
CHICKEN:GGA.5369.1.S1_AT similar to epithelial sodium channel, gamma subunit gga
CHICKEN:GGA.5369.2.S1_AT similar to epithelial sodium channel, gamma subunit gga
CHICKEN:GGA.5369.2.S1_S_AT similar to epithelial sodium channel, gamma subunit gga
HG-U133_PLUS_2:207295_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-U133A:207295_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-FOCUS:207295_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-U133A_2:207295_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-U95AV2:33497_AT sodium channel, nonvoltage-gated 1, gamma hs
HUGENEFL:X87160_AT sodium channel, nonvoltage-gated 1, gamma hs
HUGENEFL:U48936_AT sodium channel, nonvoltage-gated 1, gamma hs
U133_X3P:G4506820_3P_X_AT sodium channel, nonvoltage-gated 1, gamma hs
U133_X3P:G4506820_3P_S_AT sodium channel, nonvoltage-gated 1, gamma hs
U133_X3P:G4506820_3P_AT sodium channel, nonvoltage-gated 1, gamma hs
U133_X3P:HS.145645.0.A1_3P_AT sodium channel, nonvoltage-gated 1, gamma hs
U133_X3P:207295_3P_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-U133_PLUS_2:241436_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-U133B:241436_AT sodium channel, nonvoltage-gated 1, gamma hs
HG-U95D:80001_AT sodium channel, nonvoltage-gated 1, gamma hs
MOUSE430_2:1419079_AT sodium channel, nonvoltage-gated 1 gamma mm
MOE430A:1419079_AT sodium channel, nonvoltage-gated 1 gamma mm
MOUSE430A_2:1419079_AT sodium channel, nonvoltage-gated 1 gamma mm
MG-U74CV2:165710_AT sodium channel, nonvoltage-gated 1 gamma mm
RN-U34:X77933_AT sodium channel, nonvoltage-gated 1 gamma rn
RG-U34A:X77933_AT sodium channel, nonvoltage-gated 1 gamma rn
RAE230A:1370481_AT sodium channel, nonvoltage-gated 1 gamma rn
RAT230_2:1370481_AT sodium channel, nonvoltage-gated 1 gamma rn
RAE230A:1387986_AT sodium channel, nonvoltage-gated 1 gamma rn
RAT230_2:1387986_AT sodium channel, nonvoltage-gated 1 gamma rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6811 ion transport inferred from electronic annotation QuickGO AmiGO
6814 sodium ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
5272 sodium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB07574 Degeneration of certain neurons protein 1 [Caenorhabditis elegans] ref|NP_509311.1| DEGeneration of certain neurons family member (deg-1) [Caenorhabditis elegans] sp|P24585|DEG1_CAEEL Degenerin deg-1 (Degeneration of certain neurons protein 1) gb|AAA99524.1| degenerin 0.0
blast CAE70273 Hypothetical protein CBG16785 [Caenorhabditis briggsae] 0.0
blast CAA37396 deg-1 product [Caenorhabditis elegans] prf||1610244A deg1 gene 1.0E-174
Protein Domains
Database ID Description E-Value
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509311.1 2 76-98,717-739
C47C12.6 2 76-98,717-739
Sequence
Target Sequence 
>C. ELEGANS:188114_AT
tgttcgtgtggagatcctcgtttcccagtaccagaaggttatagacattgctcggcattt
aatgcaacagctcgtacctgtcttgagaagaacattggctcagttggagatttccatcat
atcactcaaaaaatggacaaatgcgtgtgtaagcaatcatgtgaagaaattattcatgaa
gttaccttttcatgctccaaatggccttcgggagctactgaccttggagactgtgatggt
atgacagaaagcgagtgcgaacaatactatcggctaaatgcggcaatgatcgaggtattc
tacgaacaactgaactacgaactgcttcaagaatcagaggcatacggtttggttaacttg
atcgccgattttggaggacatttaggactttggctaggattctccgtaatcaccgtgatg
gaagtttgtgttctgcttgttgatatgatttcccttttcttta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTCGTGTGGAGATCCTCGTTTCC 6 561 1768 Antisense
TCCTCGTTTCCCAGTACCAGAAGGT 463 591 1782 Antisense
AGGTTATAGACATTGCTCGGCATTT 153 57 1803 Antisense
ATGCAACAGCTCGTACCTGTCTTGA 40 45 1829 Antisense
GGAGATTTCCATCATATCACTCAAA 96 519 1873 Antisense
TTCATGCTCCAAATGGCCTTCGGGA 155 689 1956 Antisense
GGGAGCTACTGACCTTGGAGACTGT 606 495 1977 Antisense
TTTGGTTAACTTGATCGCCGATTTT 243 665 2115 Antisense
AGGACTTTGGCTAGGATTCTCCGTA 615 55 2151 Antisense
GATTCTCCGTAATCACCGTGATGGA 368 431 2165 Antisense
GTTGATATGATTTCCCTTTTCTTTA 27 437 2206 Antisense
Sequence Source Affymetrix Proprietary Database