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[188966_s_at] degenerin

Description T28D9.7 /REP_DB=WormBase Gene ID /WP=CE28095 /TR=SW:Q10025 /GB=AAA68309.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=degenerin
Cluster 6grp_total > 15      4grp_total > 45      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 90
1 2 3 4 range
A 110.8
(2.9)
A 		111.8
(3)
A 		52.3
(-3)
A 		68.2
(-1.4)
A 		60
B 142.2
(3)
A 		108.2
(0.5)
A 		80.3
(-1.6)
A 		62.1
(-3)
A 		80
C 111.7
(3)
A 		86.7
(-1.1)
A 		75.2
(-3)
A 		81
(-2)
A 		37
avr 121.6
(3) 		102.2
(0.8) 		69.3
(-3) 		70.4
(-2.9) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 112.5
(1.2)
A 		138.5
(3)
P 		68.2
(-1.8)
A 		51.1
(-3)
A 		68.6
(-1.8)
A 		81.8
(-0.9)
A 		87
B 148
(3)
P 		121.7
(1)
P 		106.1
(-0.1)
A 		68.8
(-2.9)
A 		67.3
(-3)
A 		72.1
(-2.6)
A 		81
C 143.1
(3)
P 		84.4
(-0.2)
M 		59.9
(-1.5)
A 		98.7
(0.6)
A 		76.3
(-0.6)
A 		33.1
(-3)
A 		110
avr 134.5
(3) 		114.9
(1.4) 		78.1
(-1.7) 		72.9
(-2.1) 		70.7
(-2.3) 		62.3
(-3) 		72
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 40.3
(3)
A 		24.3
(-0.2)
A 		13.7
(-2.3)
A 		10
(-3)
A 		30
B 45.3
(3)
A 		26.7
(-0.5)
A 		18.6
(-2)
A 		13.2
(-3)
A 		32
C 37
(3)
A 		24.9
(-0.1)
A 		26.2
(0.2)
A 		13.7
(-3)
A 		23
avr 40.9
(3) 		25.3
(-0.3) 		19.5
(-1.5) 		12.3
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 20.7
(-1.7)
A 		49.3
(3)
P 		14.8
(-2.7)
A 		13
(-3)
A 		20.7
(-1.7)
A 		19.9
(-1.9)
A 		36
B 51.5
(3)
P 		40.5
(1)
P 		25.8
(-1.6)
A 		18.2
(-3)
A 		27.3
(-1.4)
A 		26.9
(-1.4)
A 		33
C 53
(3)
P 		25.8
(-0.9)
M 		15.2
(-2.4)
A 		19.8
(-1.8)
A 		24.7
(-1.1)
A 		11.1
(-3)
A 		42
avr 41.7
(3) 		38.5
(2.2) 		18.6
(-2.6) 		17
(-3) 		24.2
(-1.3) 		19.3
(-2.4) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188966_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5247
Sequence Type Exemplar sequence
Representative Public ID T28D9.7 NCBI
Target Description T28D9.7 /REP_DB=WormBase Gene ID /WP=CE28095 /TR=SW:Q10025 /GB=AAA68309.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=degenerin
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_062901
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062901 NCBI Caenorhabditis elegans T28D9.7 (degenerin) mRNA, complete cds. None
SNAP00000011377 ENSEMBL cdna:SNAP chromosome:CEL140:II:6478019:6481990:-1 None
T28D9.7 ENSEMBL cdna:known chromosome:CEL140:II:6474285:6481990:-1 gene:T28D9.7 None
GENEFINDER00000011384 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6478030:6481981:-1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000011375 2/11 Cross Hyb Matching Probes None
GENEFINDER00000011386 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6474359-6481987(-) 100.0 100.0
Public Domain and Genome References
Gene Title degenerin
Ensembl T28D9.7
Entrez Gene 174069 Entrez gene
SwissProt Q10025 EMBL-EBI
WormBase CE37157 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
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
GO Molecular Function (view graph)
ID Description Evidence Links
5272 sodium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA68309 Hypothetical protein T28D9.7 [Caenorhabditis elegans] ref|NP_495302.2| T28D9.7 [Caenorhabditis elegans] sp|Q10025|DEGZ_CAEEL Degenerin-like protein T28D9.7 in chromosome II 0.0
blast CAE59316 Hypothetical protein CBG02656 [Caenorhabditis briggsae] 0.0
blast T16948 hypothetical protein T28D9.7 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.5E-6
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.5E-13
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 2.2E-4
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.5E-6
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.5E-13
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 2.2E-4
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.5E-6
Pfam IPR001873 EMBL-EBI Na+ channel, amiloride-sensitive 1.5E-13
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495302.2 2 95-114,742-764
T28D9.7 2 95-114,742-764
SNAP00000011377 1 807-829
GENEFINDER00000011384 1 785-807
Sequence
Target Sequence 
>C. ELEGANS:188966_S_AT
gaatgatccttcaggcaattcgacattgacgccgtctgaaataaagaatttcctagacca
agttcagcggaattctcaaccgccaagctatcacgatgatcatcatcctgacagtttggg
ggtagtatgggttggttgggtcaagctcttgtggtgccttgatagaagaaaaagtgacag
ggatattggttggtttgagaagaactgtagttgtcagggagtgtggcggatttttgtaaa
tgagaactttgaaaagaataataatgaagacgaaacggaagacagcgataatagtgaaca
tcactgtgaatacgtaatccttgacttcagcgaagaccactactactacaatgaccccaa
ctatttaacaatttcaccaccttcagatagaccagaagataaccgcgaaggatcaacttc
tggatattactcgagccctcgtgctccaccccaggcaaatcctcgtgatgaatctccaat
tccagataccgagccaatttcagtatctgagttttcagatgcacttgctccgcctctttt
taaaactccaccacgtgaacgacgaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATGATCCTTCAGGCAATTCGACA 29 331 2328 Antisense
CAATTCGACATTGACGCCGTCTGAA 382 179 2343 Antisense
GAATTTCCTAGACCAAGTTCAGCGG 139 325 2373 Antisense
GTTCAGCGGAATTCTCAACCGCCAA 137 445 2389 Antisense
TCAACCGCCAAGCTATCACGATGAT 482 631 2403 Antisense
GATGATCATCATCCTGACAGTTTGG 97 411 2422 Antisense
TTGGGTCAAGCTCTTGTGGTGCCTT 451 707 2463 Antisense
AATACGTAATCCTTGACTTCAGCGA 591 171 2636 Antisense
ACTTCAGCGAAGACCACTACTACTA 363 101 2651 Antisense
AATCCTCGTGATGAATCTCCAATTC 665 167 2785 Antisense
AACTCCACCACGTGAACGACGAACA 399 139 2871 Antisense
Sequence Source Affymetrix Proprietary Database