[Home] | [Total List]

[185243_at]

Description B0336.11 /REP_DB=WormBase Gene ID /WP=CE00779 /TR=Q10956 /GB=AAK18858.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 21      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 33      6grp_total > 31      4grp_total > 52      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1915
1 2 3 4 range
A 2089.9
(3)
P 		1788.7
(1.9)
P 		1607.5
(1.3)
P 		371.3
(-3)
P 		1719
B 1942.6
(2.6)
P 		2049.8
(3)
P 		1534.7
(1.2)
P 		353
(-3)
P 		1697
C 2260
(3)
P 		1825.3
(1.6)
P 		1729
(1.3)
P 		344.7
(-3)
P 		1915
avr 2097.5
(3) 		1887.9
(2.3) 		1623.7
(1.4) 		356.3
(-3) 		1741

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1765
1 2 3 4 5 6 range
A 1705.8
(0.8)
P 		2360.6
(3)
P 		2042.6
(1.9)
P 		1708.2
(0.8)
P 		1123.9
(-1.2)
P 		595.4
(-3)
P 		1765
B 2037
(2.1)
P 		2136.7
(2.4)
P 		2296.2
(3)
P 		1727
(1)
P 		1115.8
(-1.2)
P 		616.3
(-3)
P 		1680
C 1723.6
(1.3)
P 		2016.3
(2.5)
P 		2142.5
(3)
P 		2129
(2.9)
P 		1076.7
(-1.2)
P 		637.8
(-3)
P 		1505
avr 1822.1
(1.7) 		2171.2
(3) 		2160.4
(3) 		1854.7
(1.8) 		1105.5
(-1.1) 		616.5
(-3) 		1555
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 707
1 2 3 4 range
A 760.9
(3)
P 		388.3
(-0.2)
P 		420.2
(0.1)
P 		54.4
(-3)
P 		707
B 619.5
(3)
P 		506.2
(1.8)
P 		355.6
(0.1)
P 		75.2
(-3)
P 		544
C 748.1
(3)
P 		524.8
(1.1)
P 		602.6
(1.7)
P 		58.1
(-3)
P 		690
avr 709.5
(3) 		473.1
(0.8) 		459.5
(0.7) 		62.6
(-3) 		647

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 695
1 2 3 4 5 6 range
A 314.5
(-1.5)
P 		839.6
(3)
P 		444.8
(-0.4)
P 		433.2
(-0.5)
P 		339.1
(-1.3)
P 		145
(-3)
P 		695
B 708.8
(3)
P 		711.2
(3)
P 		557.6
(1.1)
P 		457.4
(-0.2)
P 		453.3
(-0.2)
P 		229.8
(-3)
P 		481
C 638.9
(3)
P 		615.2
(2.7)
P 		545.3
(1.7)
P 		428.1
(0)
P 		348.4
(-1.1)
P 		213.5
(-3)
P 		425
avr 554.1
(1.1) 		722
(3) 		515.9
(0.6) 		439.6
(-0.2) 		380.3
(-0.9) 		196.1
(-3) 		526
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185243_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6752
Sequence Type Exemplar sequence
Representative Public ID B0336.11 NCBI
Target Description B0336.11 /REP_DB=WormBase Gene ID /WP=CE00779 /TR=Q10956 /GB=AAK18858.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065831(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065831 NCBI Caenorhabditis elegans B0336.11a (B0336.11) mRNA, complete cds. 11/11 None
SNAP00000008878 ENSEMBL cdna:SNAP chromosome:CEL140:III:5706701:5707934:-1 11/11 None
B0336.11a ENSEMBL cdna:known chromosome:CEL140:III:5706683:5709272:-1 gene:B0336.11 11/11 None
B0336.11b ENSEMBL cdna:known chromosome:CEL140:III:5706686:5709278:-1 gene:B0336.11 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000008893 4/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175798 2 1 NM_065831 185243_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5706699-5709271(-) 100.0 100.0
Public Domain and Genome References
Ensembl B0336.11
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK18858 Hypothetical protein B0336.11a [Caenorhabditis elegans] ref|NP_498232.2| B0336.11a [Caenorhabditis elegans] 0.0
blast CAE64324 Hypothetical protein CBG09002 [Caenorhabditis briggsae] 0.0
blast T15338 hypothetical protein B0336.11 - Caenorhabditis elegans 1.0E-170
blast AAN63464 Hypothetical protein B0336.11b [Caenorhabditis elegans] ref|NP_871646.1| B0336.11b [Caenorhabditis elegans] 1.0E-151
blast AAK18858 Hypothetical protein B0336.11a [Caenorhabditis elegans] ref|NP_498232.2| B0336.11a [Caenorhabditis elegans] 1.0E-135
blast CAE64324 Hypothetical protein CBG09002 [Caenorhabditis briggsae] 1.0E-125
blast T15338 hypothetical protein B0336.11 - Caenorhabditis elegans 1.0E-120
Protein Domains
Database ID Description E-Value
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 4.4E-17
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 1.3E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000008878 1 253-275
Sequence
Target Sequence 
>C. ELEGANS:185243_AT
tgacttgcttgatgtcgtccttgtcaagaatcagtcttcggacacaccgatcatgttcaa
attcaaaacaacttcgcctgaaaaattccgcgttcgtcctagttctggaatagtacagcc
tggaactacggaaatcatcagagtttatcttcaatatgagtaccgacactcgtggaacaa
agaaaagtttctgcttcttacaatggaatcgtcatcaacagacgttgaaagcttctctga
acagttcaaatcagcaagcaacaaggcagaattcaaattcaaatgtagattgtcagaaaa
tttaaagcttgatcagccagaggaaagaagatcaagctttctactccagcagcaacaatt
attgagcaaaccagagggattttctctcggaggtttcaacatctacttgcctataataac
tcttattctctttctgtttttgatctttcaattttcctacatcctacaaatgagatcaga
taatgcattactcagggaaaccctagtttcgctctcttctcaaattaaagaggcttctgt
gccacttcaggaaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGACTTGCTTGATGTCGTCCTTGTC 42 571 972 Antisense
GAATCAGTCTTCGGACACACCGATC 236 327 999 Antisense
TCGCCTGAAAAATTCCGCGTTCGTC 159 599 1045 Antisense
CGCGTTCGTCCTAGTTCTGGAATAG 231 253 1060 Antisense
GAAGATCAAGCTTTCTACTCCAGCA 561 337 1298 Antisense
GAGGGATTTTCTCTCGGAGGTTTCA 195 401 1345 Antisense
GGAGGTTTCAACATCTACTTGCCTA 343 515 1360 Antisense
ACTCTTATTCTCTTTCTGTTTTTGA 221 101 1390 Antisense
CTTTCAATTTTCCTACATCCTACAA 306 223 1416 Antisense
CAGGGAAACCCTAGTTTCGCTCTCT 448 207 1464 Antisense
GGCTTCTGTGCCACTTCAGGAAACA 564 537 1503 Antisense
Sequence Source Affymetrix Proprietary Database