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[172541_x_at]

Description K01A2.8B /REP_DB=WormBase Gene ID /WP=CE19517 /TR=Q9TZ54 /GB=AAC69508.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 10      6grp_high1_10_10 > 14      4grp_highest_8_8 > 40      4grp_high_8_8 > 42      6grp_highest_nonorm > 12      6grp_total > 03      4grp_total > 53      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2442
1 2 3 4 range
A 2541.9
(3)
P 		2015
(1.6)
P 		1517.1
(0.3)
P 		231.6
(-3)
P 		2310
B 2159.3
(3)
P 		2144.1
(3)
P 		1329.2
(0.5)
P 		158.6
(-3)
P 		2001
C 2600.2
(3)
P 		1460.3
(0.1)
P 		1177.3
(-0.6)
P 		207.5
(-3)
P 		2393
avr 2433.8
(3) 		1873.1
(1.5) 		1341.2
(0.1) 		199.2
(-3) 		2235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2155
1 2 3 4 5 6 range
A 2441.4
(1.6)
P 		2851.2
(3)
P 		1526.8
(-1.6)
P 		2002.9
(0.1)
P 		1466.5
(-1.8)
P 		1107.2
(-3)
P 		1744
B 2748.2
(3)
P 		2100.3
(1)
P 		1084.5
(-2.2)
P 		2036.3
(0.8)
P 		1317.3
(-1.5)
P 		824.5
(-3)
P 		1924
C 2335.2
(3)
P 		2075.8
(2.1)
P 		1757.2
(0.9)
P 		1763.7
(0.9)
P 		1331.8
(-0.7)
P 		696.2
(-3)
P 		1639
avr 2508.3
(3) 		2342.4
(2.4) 		1456.2
(-0.9) 		1934.3
(0.9) 		1371.9
(-1.2) 		876
(-3) 		1632
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 892
1 2 3 4 range
A 925.5
(3)
P 		437.4
(-0.3)
P 		396.6
(-0.6)
P 		33.9
(-3)
P 		892
B 688.6
(3)
P 		529.5
(1.5)
P 		308
(-0.5)
P 		33.8
(-3)
P 		655
C 860.7
(3)
P 		419.8
(-0.2)
P 		410.3
(-0.3)
P 		35
(-3)
P 		826
avr 824.9
(3) 		462.2
(0.2) 		371.6
(-0.4) 		34.2
(-3) 		791

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 781
1 2 3 4 5 6 range
A 450.1
(-1.5)
P 		1014
(3)
P 		332.5
(-2.5)
P 		508
(-1.1)
P 		442.5
(-1.6)
P 		269.6
(-3)
P 		744
B 956.3
(3)
P 		699.1
(0.8)
P 		263.3
(-3)
P 		539.3
(-0.6)
P 		535.2
(-0.6)
P 		307.5
(-2.6)
P 		693
C 865.6
(3)
P 		633.4
(0.8)
P 		447.2
(-1)
P 		354.7
(-1.8)
P 		430.9
(-1.1)
P 		233.1
(-3)
P 		633
avr 757.3
(2.7) 		782.2
(3) 		347.7
(-2.1) 		467.3
(-0.7) 		469.5
(-0.7) 		270.1
(-3) 		512
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172541_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4731
Sequence Type Exemplar sequence
Representative Public ID K01A2.8B NCBI
Target Description K01A2.8B /REP_DB=WormBase Gene ID /WP=CE19517 /TR=Q9TZ54 /GB=AAC69508.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061303(11), NM_182229(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061303 NCBI Caenorhabditis elegans K01A2.8a (K01A2.8) mRNA, complete cds. 11/11 A 
NM_182229 NCBI Caenorhabditis elegans K01A2.8c (K01A2.8) mRNA, complete cds. 11/11 None
GENEFINDER00000016841 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:309554:310570:-1 11/11 None
K01A2.8b ENSEMBL cdna:known chromosome:CEL140:II:309536:310570:-1 gene:K01A2.8 11/11 A 
K01A2.8c ENSEMBL cdna:known chromosome:CEL140:II:309540:310978:-1 gene:K01A2.8 11/11 A 
K01A2.8a ENSEMBL cdna:known chromosome:CEL140:II:309554:311349:-1 gene:K01A2.8 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_061306 8/11 Cross Hyb Matching Probes A 
GENEFINDER00000016851 8/11 Cross Hyb Matching Probes None
GENEFINDER00000016852 8/11 Cross Hyb Matching Probes None
K01A2.9 8/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:309553-310570(-) 100.0 100.0
chrII:315888-316906(-) 95.62 96.67
chrII:317646-318664(-) 95.62 96.67
Public Domain and Genome References
Ensembl K01A2.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast T33644 hypothetical protein K01A2.8b - Caenorhabditis elegans 1.0E-66
blast AAC69501 Mirp k channel accessory subunit protein 2, isoform a [Caenorhabditis elegans] ref|NP_493704.1| K01A2.8a [Caenorhabditis elegans] 4.0E-66
blast AAQ96604 MiRP4 [Caenorhabditis elegans] 6.0E-65
blast AAC69500 Hypothetical protein K01A2.9 [Caenorhabditis elegans] ref|NP_493707.1| K01A2.9 [Caenorhabditis elegans] 2.0E-53
blast AAZ94292 Mirp k channel accessory subunit protein 2, isoform d [Caenorhabditis elegans] gb|AAQ96603.1| MPS-3 [Caenorhabditis elegans] 2.0E-51
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493704.1 4 29-51,66-88,101-123,133-155
NP_872029.1 3 20-42,55-74,84-106
K01A2.8b 4 29-51,66-88,101-123,133-155
K01A2.8c 3 20-42,55-74,84-106
K01A2.8a 4 29-51,66-88,101-123,133-155
GENEFINDER00000016841 4 29-51,66-88,101-123,133-155
Sequence
Target Sequence 
>C. ELEGANS:172541_X_AT
aaaaaagaatgtactcctgtccctgcactctctttcatctttaatccacgtggcaatgtt
ctatttcctattggtccaatggagtaaagccgataatccagttctcacacattttcagat
tttctgcctggtgattattggaatcggatttttgattatcttgatcttaatattcagtat
ttttaaatccgaaatgaaaagtgactcacatgcaagacgattctttcatatttggccact
ggtacatatcgccttatccaccgcctatcagctcttcacgcaaattgtgatatctcattg
gaaaacttaccagatcccaatcctctactcatcctatgcaactaccgtctctgtttgcat
tcattta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAAAAGAATGTACTCCTGTCCCTG 26 131 90 Antisense
CTCTCTTTCATCTTTAATCCACGTG 69 231 117 Antisense
TCCACGTGGCAATGTTCTATTTCCT 249 587 134 Antisense
GATAATCCAGTTCTCACACATTTTC 12 423 181 Antisense
GTGACTCACATGCAAGACGATTCTT 303 483 290 Antisense
GACGATTCTTTCATATTTGGCCACT 176 379 305 Antisense
GGCCACTGGTACATATCGCCTTATC 212 541 323 Antisense
CCTATCAGCTCTTCACGCAAATTGT 435 269 353 Antisense
GGAAAACTTACCAGATCCCAATCCT 28 527 389 Antisense
TCTACTCATCCTATGCAACTACCGT 148 615 413 Antisense
TACCGTCTCTGTTTGCATTCATTTA 142 651 432 Antisense
Sequence Source Affymetrix Proprietary Database