[Home] | [Total List]

[188439_at]

Description K03E5.2 /REP_DB=WormBase Gene ID /WP=CE18008 /TR=O61848 /GB=AAC17566.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=calponin
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 22      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 41      6grp_total > 22      4grp_total > 60      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 811
1 2 3 4 range
A 859.8
(1.6)
P 		986.2
(3)
P 		969.6
(2.8)
P 		443
(-3)
P 		543
B 992.5
(2.5)
P 		867.8
(1.3)
P 		1050
(3)
P 		405.1
(-3)
P 		645
C 993.9
(1.7)
P 		1163.4
(3)
P 		1163.5
(3)
P 		352.1
(-3)
P 		811
avr 948.7
(2) 		1005.8
(2.5) 		1061
(3) 		400.1
(-3) 		661

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 764
1 2 3 4 5 6 range
A 1051.3
(3)
P 		1000.6
(2.6)
P 		796.3
(0.9)
P 		549.2
(-1.2)
P 		667.8
(-0.2)
P 		336.2
(-3)
P 		715
B 801.9
(0.7)
P 		1096.8
(3)
P 		1080.8
(2.9)
P 		699.3
(-0.1)
P 		822.1
(0.8)
P 		333.2
(-3)
P 		764
C 990.3
(3)
P 		885.8
(2)
P 		722.6
(0.4)
P 		544.6
(-1.3)
P 		553.5
(-1.2)
P 		366.1
(-3)
P 		624
avr 947.8
(2.6) 		994.4
(3) 		866.6
(1.8) 		597.7
(-0.7) 		681.1
(0.1) 		345.2
(-3) 		649
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 346
1 2 3 4 range
A 313.1
(3)
P 		214.1
(0.6)
P 		253.5
(1.6)
P 		64.8
(-3)
P 		248
B 316.5
(3)
P 		214.3
(0.3)
P 		243.3
(1.1)
P 		86.3
(-3)
P 		230
C 329
(1.7)
P 		334.5
(1.8)
P 		405.5
(3)
P 		59.4
(-3)
P 		346
avr 319.5
(3) 		254.3
(1.4) 		300.8
(2.5) 		70.2
(-3) 		249

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 285
1 2 3 4 5 6 range
A 193.8
(-0.5)
P 		355.9
(3)
P 		173.4
(-1)
P 		139.3
(-1.7)
P 		201.5
(-0.4)
P 		81.9
(-3)
P 		274
B 279
(0.9)
P 		365.1
(3)
P 		262.5
(0.4)
P 		185.2
(-1.5)
P 		334
(2.2)
P 		124.3
(-3)
P 		241
C 367.1
(3)
P 		270.3
(0.7)
P 		183.9
(-1.3)
P 		109.5
(-3)
P 		179.1
(-1.4)
P 		122.5
(-2.7)
P 		258
avr 280
(1.6) 		330.4
(3) 		206.6
(-0.4) 		144.7
(-2) 		238.2
(0.5) 		109.6
(-3) 		221
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188439_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.304
Sequence Type Exemplar sequence
Representative Public ID K03E5.2 NCBI
Target Description K03E5.2 /REP_DB=WormBase Gene ID /WP=CE18008 /TR=O61848 /GB=AAC17566.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=calponin
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_001026364(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026364 NCBI Caenorhabditis elegans K03E5.2a (calponin) mRNA, complete cds. 9/11 None
GENEFINDER00000035359 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3419680:3424009:1 9/11 None
K03E5.2a ENSEMBL cdna:known chromosome:CEL140:I:3419638:3424195:1 gene:K03E5.2 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026365 7/11 Cross Hyb Matching Probes None
SNAP00000035352 3/11 Cross Hyb Matching Probes None
SNAP00000035353 2/11 Cross Hyb Matching Probes None
K03E5.2b 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
186951 2 1 NM_001026364 188439_at (9)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:3419380-3424009(+) 100.0 100.0
Public Domain and Genome References
Ensembl K03E5.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC17566 Hypothetical protein K03E5.2a [Caenorhabditis elegans] ref|NP_001021535.1| K03E5.2a [Caenorhabditis elegans] 1.0E-115
blast CAE68972 Hypothetical protein CBG14953 [Caenorhabditis briggsae] 1.0E-111
blast AAV28340 Hypothetical protein K03E5.2b [Caenorhabditis elegans] ref|NP_001021536.1| K03E5.2b [Caenorhabditis elegans] 2.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR000557 EMBL-EBI Calponin repeat 1.3E-6
Pfam IPR000557 EMBL-EBI Calponin repeat 1.1E-6
Pfam IPR000557 EMBL-EBI Calponin repeat 1.0E-7
Sequence
Target Sequence 
>C. ELEGANS:188439_AT
tggaagttcccatttttctaccaatttctccacgcaaccccccaacttttgcaggaaaat
ggacacttcgtcaactccgtcagactgatgcaatggtgccacttcaatccggaactaacc
agtttgacagtcaacgaggaaaaactgggtttggaatgccacgtaacacacaaaccaaag
tcgattttgccgatcatgacaagcaatggctaattgaggaacagaagcaatattccgatg
cgattgttcgacttcagtcaggaacgaatcaatttgaatctcaaaagggaaaaaccggct
tcggaatgccacgaaacacgcagacaaaagttgaattcgcggagcacggagcccgatggg
ctgtagctgacaacgcggctcacgactcaattgtccgtcttcaatccggaacgaatcaat
atgaaagtcaaaaggttccgttttttttctatgttaatgaatgcattgtcccacgtcttg
ttccccacggaatgaccggtttcggaacaccacgtgacgtcaagggaaagcatttgaaga
gaatttgggagctcgagttcccggaggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGAAGTTCCCATTTTTCTACCAAT 257 547 335 Antisense
GAAAATGGACACTTCGTCAACTCCG 430 353 389 Antisense
TCGTCAACTCCGTCAGACTGATGCA 251 605 402 Antisense
GATGCAATGGTGCCACTTCAATCCG 257 413 421 Antisense
GGAATGCCACGTAACACACAAACCA 108 533 487 Antisense
GATGCGATTGTTCGACTTCAGTCAG 298 413 571 Antisense
AGTTGAATTCGCGGAGCACGGAGCC 290 63 663 Antisense
GCCCGATGGGCTGTAGCTGACAACG 462 283 685 Antisense
TAATGAATGCATTGTCCCACGTCTT 121 637 789 Antisense
TTTCGGAACACCACGTGACGTCAAG 38 671 834 Antisense
TTGGGAGCTCGAGTTCCCGGAGGAA 253 693 879 Antisense
Sequence Source Affymetrix Proprietary Database