[Home] | [Total List]

[188901_at] degenerin

Description ZK770.1 /REP_DB=WormBase Gene ID /WP=CE15411 /TR=SW:O01635 /GB=AAB93309.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=degenerin
Cluster 6grp_highest_10_10 > 56      6grp_high1_10_10 > 75      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 90      6grp_total > 65      4grp_total > 05      6grp_cgc > 66      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 82.6
(-2.4)
P 		72.1
(-3)
P 		118
(-0.3)
P 		174.3
(3)
P 		102
B 97
(-0.3)
P 		118.9
(1.6)
P 		65.7
(-3)
P 		135.5
(3)
P 		70
C 144
(2)
P 		58.7
(-3)
P 		85.4
(-1.4)
P 		161.1
(3)
P 		102
avr 107.9
(-1) 		83.2
(-3) 		89.7
(-2.5) 		157
(3) 		74

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 75
(-1.6)
P 		76.8
(-1.4)
P 		106.5
(3)
P 		104.9
(2.8)
P 		65.7
(-3)
P 		101
(2.2)
P 		41
B 65.5
(-3)
P 		89.3
(-0.4)
P 		67.1
(-2.8)
P 		107.5
(1.7)
P 		79.4
(-1.5)
P 		119.6
(3)
P 		54
C 88.7
(-0.4)
P 		113
(3)
P 		109.8
(2.5)
P 		104.3
(1.8)
P 		70.6
(-3)
P 		95.6
(0.5)
P 		42
avr 76.4
(-2.2) 		93
(0.8) 		94.5
(1) 		105.6
(3) 		71.9
(-3) 		105.4
(3) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 30.1
(2.7)
P 		15.6
(-3)
P 		30.9
(3)
P 		25.5
(0.9)
P 		15
B 30.9
(3)
P 		29.4
(2.4)
P 		15.2
(-3)
P 		28.9
(2.2)
P 		16
C 47.7
(3)
P 		16.9
(-3)
P 		29.8
(-0.5)
P 		27.2
(-1)
P 		31
avr 36.2
(3) 		20.6
(-3) 		25.3
(-1.2) 		27.2
(-0.5) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 13.8
(-3)
P 		27.3
(3)
P 		23.2
(1.2)
P 		26.6
(2.7)
P 		19.8
(-0.3)
P 		24.6
(1.8)
P 		14
B 22.8
(-1.6)
P 		29.7
(-0.2)
P 		16.3
(-3)
P 		28.5
(-0.4)
P 		32.3
(0.4)
P 		44.6
(3)
P 		28
C 32.9
(2.3)
P 		34.5
(3)
P 		28
(0.1)
P 		21
(-3)
P 		22.8
(-2.2)
P 		32
(1.9)
P 		14
avr 23.2
(-2.6) 		30.5
(1.3) 		22.5
(-3) 		25.4
(-1.4) 		25
(-1.7) 		33.7
(3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188901_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.282
Sequence Type Exemplar sequence
Representative Public ID ZK770.1 NCBI
Target Description ZK770.1 /REP_DB=WormBase Gene ID /WP=CE15411 /TR=SW:O01635 /GB=AAB93309.1 /SUBMIT=ST.LOUIS /CHR=1 /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 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_058813(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058813 NCBI Caenorhabditis elegans ZK770.1 (degenerin) mRNA, complete cds. 11/11 None
ZK770.1 ENSEMBL cdna:known chromosome:CEL140:I:3769574:3773878:1 gene:ZK770.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000040647 6/11 Cross Hyb Matching Probes None
GENEFINDER00000040669 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:3769573-3773878(+) 100.0 100.0
Public Domain and Genome References
Gene Title degenerin
Gene Symbol asic-1
Ensembl ZK770.1
Entrez Gene 191422 Entrez gene
SwissProt O01635 EMBL-EBI
WormBase CE15411 Wormbase
Functional Annotations
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 AAB93309 Acid-sensing/amiloride-sensitive ion channel family protein 1 [Caenorhabditis elegans] ref|NP_491214.1| ZK770.1 [Caenorhabditis elegans] sp|O01635|DEGY_CAEEL Degenerin-like protein ZK770.1 in chromosome I 0.0
blast CAE66660 Hypothetical protein CBG11997 [Caenorhabditis briggsae] 0.0
blast AAB00580 Mechanosensory abnormality protein 4 [Caenorhabditis elegans] sp|P24612|MEC4_CAEEL Degenerin mec-4 (Mechanosensory abnormality protein 4) gb|AAC47265.1| MEC-4 1.0E-109
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_491214.1 1 740-762
ZK770.1 1 740-762
Sequence
Target Sequence 
>C. ELEGANS:188901_AT
ggatgtggagatcccaggttcccaccgtaccgggaatcgaaaaattgtccggtagatgac
ccctataaacgtgaatgtattaaaaacgagatgcacgtggcaactcgagactcgaagaag
cttggatgttcgtgcaagcaaccttgcaaccaagatgtctattctgtttcctactcggct
tcaaggtggcctgcgattgctggagatttatctggatgcccacttggaatggctgcccat
cattgtttgaattataaaagagaacaaggatccatgattgaagtgtactttgaacaactc
aattatgaatcacttttggaatccgaagcctatggatggtcgaaccttttatctgatttt
ggtggacaattgggattgtggatgggtgtcagtgtgatcactattggagaagtggcctgt
ttcttcttcgaagtgttcatctcattaataagctcaaatcgaacaaaacgacgtcctgct
cggaagtcattcagttcatctctacgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGTGGAGATCCCAGGTTCCCAC 441 511 1843 Antisense
AATTGTCCGGTAGATGACCCCTATA 5 179 1885 Antisense
AAGATGTCTATTCTGTTTCCTACTC 184 155 1994 Antisense
TCCTACTCGGCTTCAAGGTGGCCTG 710 527 2011 Antisense
GTGGCCTGCGATTGCTGGAGATTTA 614 491 2028 Antisense
TGGATGCCCACTTGGAATGGCTGCC 438 549 2055 Antisense
ATGGCTGCCCATCATTGTTTGAATT 565 53 2071 Antisense
ATGGTCGAACCTTTTATCTGATTTT 474 51 2178 Antisense
GGCCTGTTTCTTCTTCGAAGTGTTC 504 537 2256 Antisense
CGAACAAAACGACGTCCTGCTCGGA 102 249 2302 Antisense
AAGTCATTCAGTTCATCTCTACGAT 96 157 2326 Antisense
Sequence Source Affymetrix Proprietary Database