[Home] | [Total List]

[175890_at]

Description T13G4.E /REP_DB=WormBase Gene ID /WP=CE25998 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 06      4grp_total > 53      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 227
1 2 3 4 range
A 245
(3)
P 		166.6
(0.6)
P 		88.5
(-1.8)
A 		50.9
(-3)
A 		194
B 204
(3)
P 		152.2
(1.3)
P 		121.2
(0.3)
P 		17.7
(-3)
A 		186
C 201.2
(3)
P 		172.5
(1.5)
P 		122.1
(-1)
P 		83.5
(-3)
A 		118
avr 216.7
(3) 		163.8
(1.1) 		110.6
(-0.8) 		50.7
(-3) 		166

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 214
1 2 3 4 5 6 range
A 190.8
(3)
P 		157.5
(1.6)
P 		58.6
(-2.7)
A 		73.2
(-2.1)
A 		51.9
(-3)
A 		51.2
(-3)
A 		140
B 241.3
(3)
P 		87.6
(-1.3)
P 		95.4
(-1.1)
A 		69.7
(-1.8)
P 		71.7
(-1.8)
A 		27.6
(-3)
A 		214
C 213.1
(3)
P 		184.3
(1.9)
P 		129.2
(-0.1)
P 		90.4
(-1.5)
A 		48.7
(-3)
A 		62.4
(-2.5)
A 		164
avr 215.1
(3) 		143.1
(0.4) 		94.4
(-1.3) 		77.8
(-1.9) 		57.4
(-2.6) 		47.1
(-3) 		168
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 89.2
(3)
P 		36.2
(-0.9)
P 		23.1
(-1.9)
A 		7.5
(-3)
A 		82
B 65
(3)
P 		37.6
(0.3)
P 		28.1
(-0.6)
P 		3.8
(-3)
A 		61
C 66.6
(3)
P 		49.6
(1.1)
P 		42.6
(0.3)
P 		14.1
(-3)
A 		53
avr 73.6
(3) 		41.1
(0) 		31.3
(-0.9) 		8.5
(-3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 35.2
(0.1)
P 		56
(3)
P 		12.8
(-3)
A 		18.6
(-2.2)
A 		15.7
(-2.6)
A 		12.5
(-3)
A 		44
B 84
(3)
P 		29.2
(-1.5)
P 		23.2
(-1.9)
A 		18.5
(-2.3)
P 		29.1
(-1.5)
A 		10.3
(-3)
A 		74
C 79
(3)
P 		56.2
(0.8)
P 		32.9
(-1.4)
P 		18.2
(-2.8)
A 		15.8
(-3)
A 		20.9
(-2.5)
A 		63
avr 66.1
(3) 		47.1
(0.8) 		23
(-2) 		18.4
(-2.6) 		20.2
(-2.3) 		14.6
(-3) 		52
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175890_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19588
Sequence Type Exemplar sequence
Representative Public ID T13G4.E NCBI
Target Description T13G4.E /REP_DB=WormBase Gene ID /WP=CE25998 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster Evidence This cluster is supported by a 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_075820(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075820 NCBI Caenorhabditis elegans T13G4.3 (T13G4.3) mRNA, complete cds. 11/11 None
GENEFINDER00000044624 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1167444:1187858:1 11/11 None
SNAP00000044618 ENSEMBL cdna:SNAP chromosome:CEL140:X:1172378:1176103:1 9/11 None
T13G4.3 ENSEMBL cdna:known chromosome:CEL140:X:1163150:1177157:1 gene:T13G4.3 11/11 None
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:1167920-1176742(+) 98.93 98.93
Public Domain and Genome References
Gene Title
Ensembl T13G4.3
Entrez Gene 188483 Entrez gene
WormBase CE37147 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508221 T13G4.3 [Caenorhabditis elegans] 0.0
blast CAE60521 Hypothetical protein CBG04140 [Caenorhabditis briggsae] 0.0
blast CAE69839 Hypothetical protein CBG16163 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010558 EMBL-EBI Caenorhabditis elegans ly-6-related 1.1E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508221.3 8 172-194,260-282,357-379,429-448,680-702,738-760,786-808,848-870
T13G4.3 8 172-194,260-282,357-379,429-448,680-702,738-760,786-808,848-870
GENEFINDER00000044624 9 132-154,220-242,317-339,354-376,389-408,640-662,701-723,747-769,808-830
SNAP00000044618 4 31-53,89-111,137-159,199-221
Sequence
Target Sequence 
>C. ELEGANS:175890_AT
aacacaccgtccaggagatcgtcaaagtataattcgtttgtgtcactttatgagcatacg
agagatgatcacaaaaacttcgttgcgtcgacaattaaagaaaccgacgaagaccctggc
aaatctgacaagaaacaaacatccagtaaagatgtggctcccgattttatgccttggccg
tctgcagatgaggcacgagctctacgagaaaagatgaaatccaaaactccgctaatgctc
acaaaaacaactgtggaggaaaaaccgaaaggcggaaaatcttcagaatcggaattccga
ccgcctgtaccaattcatagaaaatataatattcagacaacggaggaagaaaacgaggag
gaggagacagactcagctccggaatcttccaaaaaacgctttagaatttccgtgtcgccg
acgaagactatagctccagcatctgcaagcagagctcaacataaaatcgtatcacaagca
tcgtctagcagctcaattccac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACACACCGTCCAGGAGATCGTCAA 400 135 3148 Antisense
GAAACCGACGAAGACCCTGGCAAAT 440 351 3247 Antisense
AAAGATGTGGCTCCCGATTTTATGC 333 123 3295 Antisense
GGCCGTCTGCAGATGAGGCACGAGC 530 543 3323 Antisense
GAAATCCAAAACTCCGCTAATGCTC 50 363 3363 Antisense
GACCGCCTGTACCAATTCATAGAAA 646 381 3446 Antisense
GGAGACAGACTCAGCTCCGGAATCT 542 517 3510 Antisense
ACGCTTTAGAATTTCCGTGTCGCCG 585 91 3543 Antisense
TCGCCGACGAAGACTATAGCTCCAG 583 599 3562 Antisense
ATAGCTCCAGCATCTGCAAGCAGAG 228 23 3577 Antisense
GCATCGTCTAGCAGCTCAATTCCAC 593 309 3625 Antisense
Sequence Source Affymetrix Proprietary Database