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[189175_at] ankyrin repeats

Description C29E6.2 /REP_DB=WormBase Gene ID /WP=CE05333 /TR=Q18297 /GB=CAA96603.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ankyrin repeats
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 80      6grp_total > 07      4grp_total > 31      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 304.4
(3)
P 		134.9
(-2.5)
P 		119.8
(-3)
P 		211.6
(-0)
P 		185
B 295.9
(3)
P 		159.2
(-3)
P 		168.5
(-2.6)
P 		228
(0)
P 		137
C 317.6
(3)
P 		143.6
(-3)
P 		150.4
(-2.8)
P 		207.3
(-0.8)
P 		174
avr 306
(3) 		145.9
(-3) 		146.2
(-3) 		215.6
(-0.4) 		160

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 233
1 2 3 4 5 6 range
A 357.7
(3)
P 		225
(-1.2)
P 		270.8
(0.3)
P 		235.6
(-0.8)
P 		178.5
(-2.6)
P 		166.2
(-3)
P 		192
B 308.1
(3)
P 		239.4
(0.6)
P 		230.6
(0.3)
P 		174.5
(-1.7)
P 		138
(-3)
P 		179
(-1.6)
P 		170
C 281.3
(2.2)
P 		305.7
(3)
P 		144.3
(-2.4)
P 		236.9
(0.7)
P 		125.1
(-3)
P 		233.2
(0.6)
P 		181
avr 315.7
(3) 		256.7
(0.9) 		215.2
(-0.6) 		215.7
(-0.6) 		147.2
(-3) 		192.8
(-1.4) 		169
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 110.8
(3)
P 		29.3
(-3)
P 		31.3
(-2.9)
P 		31
(-2.9)
P 		82
B 94.4
(3)
P 		39.3
(-3)
P 		39
(-3)
P 		48.6
(-2)
P 		55
C 105.1
(3)
P 		41.3
(-2.5)
P 		52.4
(-1.5)
P 		34.9
(-3)
P 		70
avr 103.4
(3) 		36.6
(-3) 		40.9
(-2.6) 		38.2
(-2.9) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 65.9
(0.9)
P 		80
(3)
P 		59
(-0.2)
P 		59.8
(-0.1)
P 		53.9
(-1)
P 		40.5
(-3)
P 		40
B 107.2
(3)
P 		79.7
(0.3)
P 		56
(-2)
P 		46.2
(-3)
P 		56.1
(-2)
P 		66.7
(-1)
P 		61
C 104.3
(3)
P 		93.3
(2)
P 		36.7
(-3)
P 		47.6
(-2)
P 		40.5
(-2.7)
P 		78.1
(0.7)
P 		68
avr 92.5
(3) 		84.3
(1.8) 		50.6
(-2.9) 		51.2
(-2.9) 		50.2
(-3) 		61.8
(-1.4) 		42
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189175_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9982
Sequence Type Exemplar sequence
Representative Public ID C29E6.2 NCBI
Target Description C29E6.2 /REP_DB=WormBase Gene ID /WP=CE05333 /TR=Q18297 /GB=CAA96603.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ankyrin repeats
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_069848(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069848 NCBI Caenorhabditis elegans C29E6.2 (C29E6.2) mRNA, complete cds. 11/11 None
SNAP00000002875 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11873187:11875613:1 11/11 None
GENEFINDER00000002886 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11869583:11875613:1 11/11 None
C29E6.2 ENSEMBL cdna:known chromosome:CEL140:IV:11865011:11875684:1 gene:C29E6.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:11865016-11875619(+) 100.0 100.0
Public Domain and Genome References
Gene Title ankyrin repeats
Gene Symbol trpa-1
Ensembl C29E6.2
Entrez Gene 178118 Entrez gene
WormBase CE37324 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.12725.1.S1_AT similar to transient receptor potential cation channel, subfamily A, member 1 cfa
DROSOPHILA_2:1639767_AT Transient receptor potential A1 dm
DROSGENOME1:148429_AT Transient receptor potential A1 dm
CHICKEN:GGA.18369.1.S1_AT transient receptor potential cation channel, subfamily A, member 1 gga
CHICKEN:GGAAFFX.9959.1.S1_S_AT transient receptor potential cation channel, subfamily A, member 1 gga
HG-U133_PLUS_2:208349_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133A:208349_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-FOCUS:208349_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133A_2:208349_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-U95AV2:33036_AT transient receptor potential cation channel, subfamily A, member 1 hs
U133_X3P:G6601589_3P_AT transient receptor potential cation channel, subfamily A, member 1 hs
U133_X3P:HS.326646.0.A1_3P_S_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133A_2:217590_S_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133_PLUS_2:217590_S_AT transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133A:217590_S_AT transient receptor potential cation channel, subfamily A, member 1 hs
HU35KSUBC:RC_AA609561_S_AT Transient receptor potential cation channel, subfamily A, member 1 hs
HU35KSUBD:RC_H99460_AT Transient receptor potential cation channel, subfamily A, member 1 hs
U133_X3P:HS.108873.0.A1_3P_AT Transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133_PLUS_2:228438_AT Transient receptor potential cation channel, subfamily A, member 1 hs
HG-U133B:228438_AT Transient receptor potential cation channel, subfamily A, member 1 hs
HG-U95C:52309_AT Transient receptor potential cation channel, subfamily A, member 1 hs
HG-U95C:58524_AT Transient receptor potential cation channel, subfamily A, member 1 hs
MOE430B:1457164_AT transient receptor potential cation channel, subfamily A, member 1 mm
MOUSE430_2:1457164_AT transient receptor potential cation channel, subfamily A, member 1 mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6811 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
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA96603 Hypothetical protein C29E6.2 [Caenorhabditis elegans] ref|NP_502249.2| C29E6.2 [Caenorhabditis elegans] sp|Q18297|TRPA1_CAEEL Transient receptor potential cation channel subfamily A member 1 homolog 0.0
blast CAE62138 Hypothetical protein CBG06183 [Caenorhabditis briggsae] 0.0
blast CAE62137 Hypothetical protein CBG06181 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 2.4E-20
Pfam IPR002110 EMBL-EBI Ankyrin 2.1E-9
Pfam IPR002110 EMBL-EBI Ankyrin 0.0015
Pfam IPR002110 EMBL-EBI Ankyrin 2.8E-7
Pfam IPR002110 EMBL-EBI Ankyrin 1.4E-6
Pfam IPR002110 EMBL-EBI Ankyrin 43.0
Pfam IPR002110 EMBL-EBI Ankyrin 6.0
Pfam IPR002110 EMBL-EBI Ankyrin 0.021
Pfam IPR002110 EMBL-EBI Ankyrin 2.3E-4
Pfam IPR002110 EMBL-EBI Ankyrin 2.1E-8
Pfam IPR002110 EMBL-EBI Ankyrin 8.0
Pfam IPR002110 EMBL-EBI Ankyrin 2.8E-7
Pfam IPR002110 EMBL-EBI Ankyrin 0.012
Pfam IPR002110 EMBL-EBI Ankyrin 1.2E-8
Pfam IPR002110 EMBL-EBI Ankyrin 0.0015
Pfam IPR002110 EMBL-EBI Ankyrin 3.7E-4
Pfam IPR002110 EMBL-EBI Ankyrin 0.045
Pfam IPR005821 EMBL-EBI Ion transport protein 2.4E-20
Pfam IPR002110 EMBL-EBI Ankyrin 0.82
Pfam IPR002110 EMBL-EBI Ankyrin 0.0015
Pfam IPR002110 EMBL-EBI Ankyrin 3.7E-4
Pfam IPR002110 EMBL-EBI Ankyrin 0.045
Pfam IPR005821 EMBL-EBI Ion transport protein 2.4E-20
Pfam IPR001888 EMBL-EBI Transposase, type 1 2.8E-41
Pfam IPR002110 EMBL-EBI Ankyrin 0.4
Pfam IPR002110 EMBL-EBI Ankyrin 0.0015
Pfam IPR002110 EMBL-EBI Ankyrin 3.7E-4
Pfam IPR002110 EMBL-EBI Ankyrin 0.045
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502249.2 5 795-814,878-900,915-934,955-977,1029-1051
C29E6.2 5 795-814,878-900,915-934,955-977,1029-1051
SNAP00000002875 5 273-292,356-378,393-412,433-455,507-529
GENEFINDER00000002886 3 701-720,741-763,815-837
Sequence
Target Sequence 
>C. ELEGANS:189175_AT
cttcatgtctcctctcaaaactacagtaatgatgattggagaatttgagttcactggaat
atttcacggagatgaaactactcatgctgagaaaatgtttggcccagcacacacagcagt
cgcatgtgcacttttcttctttttctgcataataatgacaattctcctgatgaatctact
tgttggtttggcagttgatgatattaaaggtgtacaagaaaaagctgaactgaaacgtct
cgcaatgcaagttgatcttgttctgcaaattgaggcctctcttcactttttcattcaacg
aaccaaaaaatatgcgacttgccgttatgcaacttttccatacggaaaacttcataagac
tggttttgccggatggtggtccaatttcagaagaagattcgggttgagtgtcagcactga
tccagaaattgacgagatgtatgaacgggaagcggagttcacttctgaaatgactcaaaa
acttcaaaaccaagcagctaaactcaaaaatattcaagaaaatattgatgtgatgtacga
gaagcaagtacgacttgaagcaatcattgcaaagctcgcgacagggctcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCATGTCTCCTCTCAAAACTACA 321 221 2955 Antisense
GAAAATGTTTGGCCCAGCACACACA 648 353 3045 Antisense
AGCAGTCGCATGTGCACTTTTCTTC 621 77 3069 Antisense
GATGAATCTACTTGTTGGTTTGGCA 236 411 3123 Antisense
AAGCTGAACTGAAACGTCTCGCAAT 130 151 3176 Antisense
AAATTGAGGCCTCTCTTCACTTTTT 394 113 3221 Antisense
GACTTGCCGTTATGCAACTTTTCCA 628 371 3270 Antisense
GACTGGTTTTGCCGGATGGTGGTCC 511 375 3312 Antisense
AGATTCGGGTTGAGTGTCAGCACTG 616 65 3349 Antisense
GAACGGGAAGCGGAGTTCACTTCTG 551 345 3397 Antisense
TTGCAAAGCTCGCGACAGGGCTCAA 264 659 3521 Antisense
Sequence Source Affymetrix Proprietary Database