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[194249_x_at]

Description C48277 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K01A2.8B /5_PRIME_EXT_DB=WormBase Gene ID /GB=C48277 /WB_GENE_ID=K01A2.8B /WP=CE19517 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk461g9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 70      4grp_highest_8_8 > 40      4grp_high_8_8 > 43      6grp_highest_nonorm > 21      6grp_total > 03      4grp_total > 52      6grp_high1_sub > 04      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1580
1 2 3 4 range
A 1488.8
(2.2)
P 		1711.5
(3)
P 		989.6
(0.3)
P 		131.4
(-3)
P 		1580
B 1371.8
(3)
P 		1197.5
(2.1)
P 		768
(0)
P 		150.1
(-3)
P 		1222
C 1364.7
(3)
P 		1106.3
(1.7)
P 		845.8
(0.3)
P 		213.8
(-3)
P 		1151
avr 1408.4
(3) 		1338.4
(2.7) 		867.8
(0.4) 		165.1
(-3) 		1243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1545
1 2 3 4 5 6 range
A 2126.9
(3)
P 		1498.3
(0.6)
P 		948.3
(-1.6)
P 		1786.7
(1.7)
P 		1537.7
(0.7)
P 		581.5
(-3)
P 		1545
B 1263.4
(0.3)
P 		1745.4
(3)
P 		827.8
(-2.1)
P 		1722.5
(2.9)
P 		1402.4
(1.1)
P 		663.1
(-3)
P 		1082
C 1257.8
(0.5)
P 		1725.4
(3)
P 		1133.8
(-0.2)
P 		1626.5
(2.5)
P 		1077.1
(-0.5)
P 		619.6
(-3)
P 		1106
avr 1549.4
(2.1) 		1656.4
(2.7) 		970
(-1.1) 		1711.9
(3) 		1339.1
(0.9) 		621.4
(-3) 		1091
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 523
1 2 3 4 range
A 542.1
(3)
P 		371.5
(1)
P 		258.7
(-0.3)
P 		19.2
(-3)
P 		523
B 437.5
(3)
P 		295.8
(0.9)
P 		178
(-0.8)
P 		32
(-3)
P 		406
C 451.7
(3)
P 		318.1
(1.1)
P 		294.8
(0.7)
P 		36.1
(-3)
P 		416
avr 477.1
(3) 		328.5
(1) 		243.8
(-0.1) 		29.1
(-3) 		448

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 439
1 2 3 4 5 6 range
A 392.1
(0.8)
P 		532.9
(3)
P 		206.5
(-2)
P 		453.2
(1.8)
P 		464
(1.9)
P 		141.6
(-3)
P 		391
B 439.6
(0.8)
P 		581
(3)
P 		201
(-3)
P 		456.2
(1)
P 		569.8
(2.8)
P 		247.3
(-2.3)
P 		380
C 466.2
(1.9)
P 		526.5
(3)
P 		288.6
(-1.5)
P 		327.1
(-0.7)
P 		348.5
(-0.3)
P 		207.4
(-3)
P 		319
avr 432.6
(1) 		546.8
(3) 		232
(-2.4) 		412.2
(0.7) 		460.8
(1.5) 		198.8
(-3) 		348
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194249_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23762
Sequence Type Exemplar sequence
Representative Public ID C48277 NCBI
Target Description C48277 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K01A2.8B /5_PRIME_EXT_DB=WormBase Gene ID /GB=C48277 /WB_GENE_ID=K01A2.8B /WP=CE19517 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk461g9 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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(9), NM_182229(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061303 NCBI Caenorhabditis elegans K01A2.8a (K01A2.8) mRNA, complete cds. 9/11 A 
NM_182229 NCBI Caenorhabditis elegans K01A2.8c (K01A2.8) mRNA, complete cds. 9/11 None
GENEFINDER00000016841 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:309554:310570:-1 9/11 None
K01A2.8b ENSEMBL cdna:known chromosome:CEL140:II:309536:310570:-1 gene:K01A2.8 9/11 A 
K01A2.8c ENSEMBL cdna:known chromosome:CEL140:II:309540:310978:-1 gene:K01A2.8 9/11 A 
K01A2.8a ENSEMBL cdna:known chromosome:CEL140:II:309554:311349:-1 gene:K01A2.8 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_061306 6/11 Cross Hyb Matching Probes A 
GENEFINDER00000016851 6/11 Cross Hyb Matching Probes None
GENEFINDER00000016852 6/11 Cross Hyb Matching Probes None
K01A2.9 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:309554-310571(-) 100.0 100.0
chrII:315889-316907(-) 95.83 96.67
chrII:317647-318665(-) 95.83 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:194249_X_AT
aaaaaagaatgtactcctgtccctgcactctctttcatctttaatccacgtggcaatgtt
ctatttcctattggtccaatggagtaaagccgataatccagttctcacacattttcaggt
tttctgcctggtgattattggaatcggatttttgattatcttgatcttaatattcagtat
ttttaaatccgaaatgaaaagtgactcacatgcaagacgattctttcatagttggccact
ggtacatatcgccttatccaccgcctatcagctcttcacgcaaattgtgatatctcattg
gaaaacttaccagatcccaatcctctactcatcctatgcaactaccgtctctgtttgcat
tcattta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAAAAGAATGTACTCCTGTCCCTG 29 131 91 Antisense
CTCTCTTTCATCTTTAATCCACGTG 73 231 118 Antisense
TCCACGTGGCAATGTTCTATTTCCT 253 587 135 Antisense
AAAGCCGATAATCCAGTTCTCACAC 294 125 176 Antisense
GTTCTCACACATTTTCAGGTTTTCT 385 443 191 Antisense
GACGATTCTTTCATAGTTGGCCACT 180 379 306 Antisense
GGCCACTGGTACATATCGCCTTATC 208 541 324 Antisense
CCTATCAGCTCTTCACGCAAATTGT 439 269 354 Antisense
GGAAAACTTACCAGATCCCAATCCT 30 527 390 Antisense
TCTACTCATCCTATGCAACTACCGT 151 615 414 Antisense
TACCGTCTCTGTTTGCATTCATTTA 145 651 433 Antisense
Sequence Source Affymetrix Proprietary Database