[Home] | [Total List]

[187023_s_at]

Description Y56A3A.17A /REP_DB=WormBase Gene ID /WP=CE22584 /TR=Q9U240 /GB=CAB60499.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 88      4grp_total > 26      6grp_cgc > 59      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 221
1 2 3 4 range
A 495
(-1.8)
M 		463.1
(-3)
M 		534.8
(-0.2)
A 		617.9
(3)
A 		155
B 450.6
(-3)
P 		563.7
(0.1)
A 		468
(-2.5)
P 		671.2
(3)
M 		221
C 543.7
(-1.9)
A 		637.2
(3)
A 		534.1
(-2.4)
P 		522.9
(-3)
M 		114
avr 496.4
(-3) 		554.7
(0.3) 		512.3
(-2.1) 		604
(3) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 349
1 2 3 4 5 6 range
A 406.4
(-2.8)
A 		486.5
(-1.3)
M 		486
(-1.3)
A 		396.2
(-3)
A 		473.3
(-1.5)
A 		713.8
(3)
P 		318
B 480.1
(-1.6)
A 		422
(-3)
A 		596.6
(1.1)
A 		483.4
(-1.5)
A 		630
(1.9)
M 		674.7
(3)
P 		253
C 463.2
(-1.2)
A 		522.1
(-0.1)
A 		374.1
(-2.8)
A 		365.1
(-3)
A 		636.7
(2.1)
P 		684.7
(3)
P 		320
avr 449.9
(-2.2) 		476.9
(-1.7) 		485.6
(-1.5) 		414.9
(-3) 		580
(0.6) 		691.1
(3) 		276
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 180.2
(3)
M 		100.5
(-2.3)
M 		139.8
(0.3)
A 		90.4
(-3)
A 		90
B 143.7
(3)
P 		139.2
(2.2)
A 		108.4
(-3)
P 		143
(2.9)
M 		35
C 180
(2.6)
A 		183.2
(2.8)
A 		186.1
(3)
P 		88.2
(-3)
M 		98
avr 168
(3) 		141
(0.3) 		144.8
(0.7) 		107.2
(-3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 74.9
(-3)
A 		173
(3)
M 		105.8
(-1.1)
A 		100.5
(-1.4)
A 		142.8
(1.1)
A 		173.8
(3)
P 		99
B 167.1
(-1.2)
A 		140.5
(-2.4)
A 		144.9
(-2.2)
A 		128
(-3)
A 		255.9
(3)
M 		251.6
(2.8)
P 		128
C 171.7
(0.8)
A 		159.3
(0.3)
A 		95.2
(-2.2)
A 		73.4
(-3)
A 		206
(2.1)
P 		229.2
(3)
P 		156
avr 137.9
(-1.1) 		157.6
(-0.1) 		115.3
(-2.3) 		100.6
(-3) 		201.6
(2.2) 		218.2
(3) 		118
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187023_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7814
Sequence Type Exemplar sequence
Representative Public ID Y56A3A.17A NCBI
Target Description Y56A3A.17A /REP_DB=WormBase Gene ID /WP=CE22584 /TR=Q9U240 /GB=CAB60499.1 /SUBMIT=HINXTON /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_067149(11), NM_067150(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067149 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-16) (npp-16) mRNA, complete cds. 11/11 None
NM_067150 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-16) (npp-16) mRNA, complete cds. 11/11 None
SNAP00000035197 ENSEMBL cdna:SNAP chromosome:CEL140:III:11915811:11917632:1 11/11 None
GENEFINDER00000035216 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11915811:11917632:1 11/11 None
Y56A3A.17a ENSEMBL cdna:known chromosome:CEL140:III:11915767:11917723:1 gene:Y56A3A.17 11/11 None
Y56A3A.17b ENSEMBL cdna:known chromosome:CEL140:III:11915811:11917632:1 gene:Y56A3A.17 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
chrIII:11915806-11917628(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y56A3A.17
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60499 Hypothetical protein Y56A3A.17a [Caenorhabditis elegans] ref|NP_499550.1| Nuclear Pore complex Protein family member (npp-16) [Caenorhabditis elegans] 0.0
blast CAB60516 Hypothetical protein Y56A3A.17b [Caenorhabditis elegans] ref|NP_499551.1| Nuclear Pore complex Protein family member (npp-16) [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:187023_S_AT
ccttctaagcctctggtgttcggaggaagctccgcagactctaccacatcggctccaaaa
cctttctcggctctttccacggcagcttcattatttggatcaagctctgcctccaccacc
accaccgccactcaaccattatcatttggctcaagctccactggaggctcaagccttttc
agcggattcgctggtctcgcacagaaagccatggaaaatcagaatcaggcgaaaccagag
ggttctggtgaagacgatgagggagaatatgtgcctccgaaggtggaaaccgtcgaaaat
caggagccggatgcagtgctgagcagcaaagtatccgtgttcaagttcaccggaaaagaa
tacacaaagcttggagttggaatgctgcacattaaagacaacgatggaaaattcagtgtg
ctcattcgagccgccacagcgaccggaacagtctggctgaattctctgtgcaataaggcg
atgaaggcgacagttgtggacgcgaaaggtgaccggatccggctgacatgtccgtcttcg
agcaccgaaatggctacgatgatgattcgattcgggacggctgatgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTTCTAAGCCTCTGGTGTTCGGAG 523 257 922 Antisense
TCTTTCCACGGCAGCTTCATTATTT 566 615 993 Antisense
ATCATTTGGCTCAAGCTCCACTGGA 293 29 1062 Antisense
TTCGCTGGTCTCGCACAGAAAGCCA 50 697 1108 Antisense
CAGGAGCCGGATGCAGTGCTGAGCA 422 209 1222 Antisense
GAGCAGCAAAGTATCCGTGTTCAAG 691 387 1242 Antisense
GCCACAGCGACCGGAACAGTCTGGC 226 279 1354 Antisense
CAGTCTGGCTGAATTCTCTGTGCAA 707 207 1370 Antisense
GTGACCGGATCCGGCTGACATGTCC 455 481 1430 Antisense
GTCCGTCTTCGAGCACCGAAATGGC 81 475 1451 Antisense
GATTCGATTCGGGACGGCTGATGGA 705 431 1485 Antisense
Sequence Source Affymetrix Proprietary Database