[Home] | [Total List]

[172717_x_at]

Description F08B12.3A /REP_DB=WormBase Gene ID /WP=CE09233 /GEN=slo-2 /TR=Q19190 /GB=CAA92115.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 35      6grp_high1_10_10 > 41      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 61      6grp_total > 31      4grp_total > 39      6grp_highest_sub > 03      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 517
1 2 3 4 range
A 603.7
(3)
P 		204.7
(-2.4)
P 		161.2
(-3)
P 		222.5
(-2.2)
P 		443
B 463.7
(3)
P 		240.2
(-2.5)
P 		219.4
(-3)
P 		297.8
(-1.1)
P 		244
C 678.2
(3)
P 		255.1
(-2.8)
P 		236.8
(-3)
P 		357.3
(-1.4)
P 		441
avr 581.9
(3) 		233.3
(-2.6) 		205.8
(-3) 		292.5
(-1.6) 		376

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 299
1 2 3 4 5 6 range
A 309
(-2.1)
P 		529.8
(2.3)
P 		565.5
(3)
P 		448.9
(0.7)
P 		356.2
(-1.2)
P 		266.3
(-3)
P 		299
B 398.3
(-0.4)
P 		435.7
(0.5)
P 		541.5
(3)
P 		375.1
(-0.9)
P 		285.4
(-3)
P 		324
(-2.1)
P 		256
C 403.3
(0.7)
P 		431.4
(1.5)
P 		464.5
(2.5)
P 		482.1
(3)
P 		274.7
(-3)
P 		344
(-1)
P 		207
avr 370.2
(-1.2) 		465.6
(1.4) 		523.8
(3) 		435.4
(0.6) 		305.4
(-3) 		311.4
(-2.8) 		218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 192
1 2 3 4 range
A 219.8
(3)
P 		44.4
(-2.6)
P 		42.1
(-2.7)
P 		32.6
(-3)
P 		187
B 147.9
(3)
P 		59.3
(-2.5)
P 		50.8
(-3)
P 		63.5
(-2.2)
P 		97
C 224.5
(3)
P 		73.3
(-2.5)
P 		82.5
(-2.2)
P 		60.2
(-3)
P 		164
avr 197.4
(3) 		59
(-2.7) 		58.5
(-2.7) 		52.1
(-3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 57
(-3)
P 		188.4
(3)
P 		123.2
(0)
P 		113.8
(-0.4)
P 		107.5
(-0.7)
P 		64.8
(-2.6)
P 		131
B 138.6
(2.2)
P 		145
(3)
P 		131.5
(1.2)
P 		99.3
(-3)
P 		116
(-0.8)
P 		120.8
(-0.2)
P 		46
C 149.5
(3)
P 		131.6
(1.2)
P 		118.2
(-0.1)
P 		96.9
(-2.2)
P 		88.9
(-3)
P 		115.1
(-0.4)
P 		61
avr 115
(-1.4) 		155
(3) 		124.3
(-0.4) 		103.3
(-2.7) 		104.1
(-2.6) 		100.2
(-3) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172717_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15986
Sequence Type Exemplar sequence
Representative Public ID F08B12.3A NCBI
Target Description F08B12.3A /REP_DB=WormBase Gene ID /WP=CE09233 /GEN=slo-2 /TR=Q19190 /GB=CAA92115.1 /SUBMIT=HINXTON /CHR=X /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_001029357(10), NM_001029356(11), NM_001029358(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029357 NCBI Caenorhabditis elegans SLOwpoke potassium channel family member (slo-2) (slo-2) mRNA, complete cds. 10/11 None
NM_001029356 NCBI Caenorhabditis elegans SLOwpoke potassium channel family member (slo-2) (slo-2) mRNA, complete cds. 11/11 None
NM_001029358 NCBI Caenorhabditis elegans SLOwpoke potassium channel family member (slo-2) (slo-2) mRNA, complete cds. 10/11 None
SNAP00000001946 ENSEMBL cdna:SNAP chromosome:CEL140:X:11394623:11399459:-1 10/11 None
GENEFINDER00000001952 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11394623:11400610:-1 10/11 None
F08B12.3b ENSEMBL cdna:known chromosome:CEL140:X:11394529:11400610:-1 gene:F08B12.3 10/11 A 
F08B12.3a ENSEMBL cdna:known chromosome:CEL140:X:11394535:11400809:-1 gene:F08B12.3 11/11 A 
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
chrX:11394622-11400610(-) 100.0 100.0
Public Domain and Genome References
Ensembl F08B12.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92116 Hypothetical protein F08B12.3b [Caenorhabditis elegans] ref|NP_001024528.1| SLOwpoke potassium channel family member (slo-2) [Caenorhabditis elegans] gb|AAF37866.1| SLO-2 potassium channel [Caenorhabditis elegans] 0.0
blast CAA92115 Hypothetical protein F08B12.3a [Caenorhabditis elegans] ref|NP_001024527.1| SLOwpoke potassium channel family member (slo-2) [Caenorhabditis elegans] gb|AAD51350.1| putative potassium channel Slo-2 [Caenorhabditis elegans] 0.0
blast CAI79159 Hypothetical protein F08B12.3c [Caenorhabditis elegans] ref|NP_001024529.1| SLOwpoke potassium channel family member (slo-2) [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024528.1 5 124-146,170-192,213-235,250-267,274-291
NP_001024527.1 5 124-146,170-192,213-235,250-267,274-291
NP_001024529.1 6 104-126,133-155,194-216,229-248,252-271,291-313
F08B12.3b 5 124-146,170-192,213-235,250-267,274-291
F08B12.3a 5 124-146,170-192,213-235,250-267,274-291
SNAP00000001946 5 72-94,109-131,144-163,167-186,206-228
GENEFINDER00000001952 5 124-146,170-192,213-235,250-267,274-291
Sequence
Target Sequence 
>C. ELEGANS:172717_X_AT
atcaggctattatcaaaccgtttgtggttgatctagtcagacttcttcttggaattgatc
aacatagtgatggcggatatttaacttcgtttgttatcacatcggatgacttatggattc
ggaattatggacgattgtatcaaaaactatgctcctctgtggctgatattcctatcggta
ttttcagaaccaaaaagatggacactaagacggtatcccttgatcttcaagaacaatgca
aagattttgaaaacactgaaatgggaagaaacaaagatatgtatgatcatgtgaaaaatc
gaatgagacttcttaatataaaagacactcatactttcaattggaaatatgctagccggt
gcagatcaacagtgctcgaaggaagcgatgaaaagtcgcaaatctcatatgtcatcatca
atcctgctcaagatttggaactagagtccggagatattgtctacgtaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCAGGCTATTATCAAACCGTTTGT 568 29 2765 Antisense
ATCTAGTCAGACTTCTTCTTGGAAT 63 33 2795 Antisense
GATGGCGGATATTTAACTTCGTTTG 231 407 2833 Antisense
AACTTCGTTTGTTATCACATCGGAT 371 139 2847 Antisense
GTATCAAAAACTATGCTCCTCTGTG 386 453 2901 Antisense
CTCCTCTGTGGCTGATATTCCTATC 345 235 2916 Antisense
GACACTAAGACGGTATCCCTTGATC 656 365 2965 Antisense
GCCGGTGCAGATCAACAGTGCTCGA 349 283 3119 Antisense
AAAGTCGCAAATCTCATATGTCATC 25 123 3156 Antisense
ATATGTCATCATCAATCCTGCTCAA 466 19 3171 Antisense
GAGTCCGGAGATATTGTCTACGTAA 626 397 3208 Antisense
Sequence Source Affymetrix Proprietary Database