[Home] | [Total List]

[183376_at]

Description Y39B6B.K /REP_DB=WormBase Gene ID /WP=CE21686 /TR=Q9NEU9 /GB=CAB60916.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 05      6grp_highest_nonorm > 90      6grp_total > 05      4grp_total > 47      6grp_highest_sub > De      6grp_high1_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 422
1 2 3 4 range
A 420
(3)
P 		87
(-3)
P 		106.4
(-2.7)
P 		150
(-1.9)
A 		333
B 475.7
(3)
P 		117.2
(-2.1)
P 		53.7
(-3)
P 		68.3
(-2.8)
A 		422
C 395.7
(3)
P 		135.8
(-2.2)
P 		103.6
(-2.9)
P 		97.8
(-3)
A 		298
avr 430.5
(3) 		113.3
(-2.6) 		87.9
(-3) 		105.4
(-2.7) 		343

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 128.7
(3)
P 		105.1
(0.3)
P 		97
(-0.6)
P 		75.5
(-3)
P 		82.2
(-2.2)
P 		81.7
(-2.3)
P 		53
B 107.5
(2.6)
P 		87.8
(0.8)
P 		73.8
(-0.6)
P 		72
(-0.8)
P 		111.3
(3)
P 		48.6
(-3)
P 		63
C 118.4
(3)
P 		85.3
(-0.1)
P 		102.4
(1.5)
P 		82.6
(-0.3)
P 		92.7
(0.6)
P 		53.4
(-3)
P 		65
avr 118.2
(3) 		92.7
(0.3) 		91.1
(0.1) 		76.7
(-1.4) 		95.4
(0.6) 		61.2
(-3) 		57
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 152.9
(3)
P 		18.9
(-3)
P 		27.8
(-2.6)
P 		22
(-2.9)
A 		134
B 151.7
(3)
P 		29
(-2.3)
P 		12.5
(-3)
P 		14.5
(-2.9)
A 		139
C 131
(3)
P 		39
(-1.8)
P 		36.1
(-2)
P 		16.5
(-3)
A 		115
avr 145.2
(3) 		29
(-2.5) 		25.5
(-2.6) 		17.7
(-3) 		128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 23.7
(-1.5)
P 		37.4
(3)
P 		21.1
(-2.3)
P 		19.1
(-3)
P 		24.8
(-1.1)
P 		19.9
(-2.7)
P 		18
B 37.4
(1.3)
P 		29.2
(-0.5)
P 		17.9
(-3)
P 		19.1
(-2.7)
P 		45.2
(3)
P 		18.1
(-3)
P 		27
C 43.9
(3)
P 		26
(-0.9)
P 		26.1
(-0.9)
P 		16.6
(-3)
P 		30
(-0.1)
P 		17.9
(-2.7)
P 		27
avr 35
(3) 		30.9
(1.5) 		21.7
(-1.8) 		18.3
(-3) 		33.3
(2.4) 		18.6
(-2.9) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183376_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19459
Sequence Type Exemplar sequence
Representative Public ID Y39B6B.K NCBI
Target Description Y39B6B.K /REP_DB=WormBase Gene ID /WP=CE21686 /TR=Q9NEU9 /GB=CAB60916.1 /SUBMIT=HINXTON /CHR=5 /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_171582(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171582 NCBI Caenorhabditis elegans Y39B6A.28 (Y39B6A.28) mRNA, complete cds. 11/11 None
GENEFINDER00000030710 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19029054:19037989:1 11/11 None
Y39B6A.28 ENSEMBL cdna:known chromosome:CEL140:V:19036500:19037989:1 gene:Y39B6A.28 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000030538 3/11 Cross Hyb Matching Probes None
SNAP00000030539 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:19029053-19037989(+) 98.68 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39B6A.28
Entrez Gene 260228 Entrez gene
SwissProt Q8MYN2 EMBL-EBI
WormBase CE29869 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast T45037 hypothetical protein Y39B6B.k [imported] - Caenorhabditis elegans 0.0
blast CAD31822 Hypothetical protein Y39B6A.25 [Caenorhabditis elegans] ref|NP_741669.1| Y39B6A.25 [Caenorhabditis elegans] 0.0
blast CAE72983 Hypothetical protein CBG20325 [Caenorhabditis briggsae] 1.0E-173
blast CAD31824 Hypothetical protein Y39B6A.28 [Caenorhabditis elegans] ref|NP_741672.1| Y39B6A.28 [Caenorhabditis elegans] 1.0E-149
blast T45037 hypothetical protein Y39B6B.k [imported] - Caenorhabditis elegans 1.0E-149
blast CAE56976 Hypothetical protein CBG24829 [Caenorhabditis briggsae] 5.0E-88
Protein Domains
Database ID Description E-Value
Pfam IPR008191 EMBL-EBI Maternal tudor protein 3.6E-16
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 2.3E-28
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 1.3E-57
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741672.1 6 7-26,36-58,71-93,113-135,148-167,171-193
Y39B6A.28 6 7-26,36-58,71-93,113-135,148-167,171-193
GENEFINDER00000030710 11 678-697,702-721,726-748,761-783,816-835,872-894,904-926,939-961,981-1003,1016-1035,1039-1061
Sequence
Target Sequence 
>C. ELEGANS:183376_AT
ctatggtacttggagcacttgctgtgtgcatttattgctgtttggttcatgcttcaacgc
cgtttgaagcaccaatgagacctactagtcaaccgtcattattgattagtcatagctacc
cactaatcttcataatctccttcttttgtggaatgagtgattgttgtataaatagtgttc
gaagtgtgatctgtgccctcgtaatgccctcaagacggtcacagtcctttgcggtcgccc
ggatgtatcacgcatttgcatgtaccatatgtttcttcttttctccaatggttccactgt
atttttatactttagggcttccaagtttatcgatttttgctattttcgtgttcttcagag
ttgttgacaatactcacgtgatggaacgaaaaatcactgagcagaaagagctgaatgcag
ctaaattagagaaattaaggcaaattgctgaagcgaataaatattgcgccgaggctccga
aaatgcgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTATGGTACTTGGAGCACTTGCTGT 123 225 2828 Antisense
TGCTGTTTGGTTCATGCTTCAACGC 399 581 2863 Antisense
GAGACCTACTAGTCAACCGTCATTA 378 389 2904 Antisense
TCATAGCTACCCACTAATCTTCATA 155 613 2937 Antisense
ATCTTCATAATCTCCTTCTTTTGTG 143 31 2953 Antisense
TCGAAGTGTGATCTGTGCCCTCGTA 308 601 3006 Antisense
TCAAGACGGTCACAGTCCTTTGCGG 9 633 3037 Antisense
TACCATATGTTTCTTCTTTTCTCCA 601 649 3090 Antisense
TCTTTTCTCCAATGGTTCCACTGTA 572 615 3104 Antisense
GATTTTTGCTATTTTCGTGTTCTTC 211 429 3159 Antisense
TGCGCCGAGGCTCCGAAAATGCGTC 61 581 3292 Antisense
Sequence Source Affymetrix Proprietary Database