[Home] | [Total List]

[178517_at]

Description C49F8.3 /REP_DB=WormBase Gene ID /WP=CE05458 /TR=Q18709 /GB=CAA94123.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 08      6grp_high1_10_10 > 80      6grp_highest_nonorm > 45      6grp_total > 92      4grp_total > 58      6grp_high1_sub > 02_03_04_05      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4975
1 2 3 4 range
A 1721
(-0.9)
P 		4218.2
(2.7)
P 		4446.4
(3)
P 		262.4
(-3)
A 		4184
B 1748.8
(-1.1)
P 		4035.5
(1.7)
P 		5139.9
(3)
P 		164.6
(-3)
A 		4975
C 1892.5
(-0.8)
P 		3753.9
(1.8)
P 		4579.9
(3)
P 		289.7
(-3)
A 		4290
avr 1787.4
(-0.9) 		4002.5
(2) 		4722.1
(3) 		238.9
(-3) 		4483

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2495
1 2 3 4 5 6 range
A 1572.4
(-1.4)
P 		3089.7
(2.3)
P 		2235.1
(0.2)
P 		2304.2
(0.4)
P 		3387.9
(3)
P 		893
(-3)
P 		2495
B 1840.6
(-0.5)
P 		2804.9
(2.5)
P 		2001.6
(0)
P 		2858.5
(2.7)
P 		2954.7
(3)
P 		1044.5
(-3)
P 		1910
C 1272.8
(-2.2)
P 		2825.4
(3)
P 		1863
(-0.2)
P 		2615.7
(2.3)
P 		2520.2
(2)
P 		1043.7
(-3)
P 		1782
avr 1561.9
(-1.3) 		2906.7
(2.9) 		2033.2
(0.2) 		2592.8
(1.9) 		2954.3
(3) 		993.7
(-3) 		1961
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1561
1 2 3 4 range
A 626.6
(0.1)
P 		915.7
(1.7)
P 		1162.4
(3)
P 		38.4
(-3)
A 		1124
B 557.7
(-0.3)
P 		996.7
(2)
P 		1191
(3)
P 		35.1
(-3)
A 		1156
C 626.5
(-0.8)
P 		1079.3
(1)
P 		1596.2
(3)
P 		48.9
(-3)
A 		1547
avr 603.6
(-0.4) 		997.2
(1.5) 		1316.5
(3) 		40.8
(-3) 		1276

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 983
1 2 3 4 5 6 range
A 289.9
(-2.5)
P 		1098.9
(3)
P 		486.7
(-1.2)
P 		584.4
(-0.5)
P 		1022.3
(2.5)
P 		217.4
(-3)
P 		882
B 640.4
(-1.1)
P 		933.6
(1)
P 		486.1
(-2.3)
P 		757.1
(-0.3)
P 		1200.5
(3)
P 		389.5
(-3)
P 		811
C 471.8
(-1.6)
P 		862.1
(3)
P 		474.2
(-1.5)
P 		526
(-0.9)
P 		815.5
(2.5)
P 		349.4
(-3)
P 		513
avr 467.4
(-1.7) 		964.9
(2.6) 		482.3
(-1.6) 		622.5
(-0.4) 		1012.8
(3) 		318.8
(-3) 		694
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178517_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17614
Sequence Type Exemplar sequence
Representative Public ID C49F8.3 NCBI
Target Description C49F8.3 /REP_DB=WormBase Gene ID /WP=CE05458 /TR=Q18709 /GB=CAA94123.1 /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_077825(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077825 NCBI Caenorhabditis elegans C49F8.3 (C49F8.3) mRNA, complete cds. 11/11 None
SNAP00000013057 ENSEMBL cdna:SNAP chromosome:CEL140:X:13386145:13387463:-1 11/11 None
GENEFINDER00000013058 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13386145:13387468:-1 11/11 None
C49F8.3 ENSEMBL cdna:known chromosome:CEL140:X:13386074:13387468:-1 gene:C49F8.3 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:13386144-13387463(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C49F8.3
Entrez Gene 181459 Entrez gene
SwissProt Q18709 EMBL-EBI
WormBase CE05458 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94123 Hypothetical protein C49F8.3 [Caenorhabditis elegans] ref|NP_510226.1| C49F8.3 [Caenorhabditis elegans] 1.0E-103
blast CAE63374 Hypothetical protein CBG07786 [Caenorhabditis briggsae] 6.0E-97
blast NP_508084 R57.2 [Caenorhabditis elegans] gb|AAB52661.3| Hypothetical protein R57.2 [Caenorhabditis elegans] 1.0E-24
Protein Domains
Database ID Description E-Value
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 3.0E-57
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 3.0E-57
Sequence
Target Sequence 
>C. ELEGANS:178517_AT
gacgtcctgtttgttattggctgcctttgccacatacggtttcgcacaagaaaatggaat
cgactttgataatccgggaaactgcggtacagaagccagcaattggaagccatgcattga
acgaaaggtagcagatcaagttttcggtagctgctgctccagatttgtgccaccagagtg
tcgcagtctttgcatctatgagacaaatgctattgaagctagagttgtgctgatgcacgc
catccaaccatcccgttgccgtctctacaaatacttgccagcaattgtacattgtgcggc
tcaaacccacgacaacagcgaatgctgcagatccaacggagtcgccgagctcggggagca
atgtgttcagatgtgccagccacaaagtaatccaagacgattctggggagtgaagtctct
ccgtaaggatatggttgtgtgtctcgcacgatgggatcaaatcatgcagtgtcatcagtc
tggactcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGTCCTGTTTGTTATTGGCTGCC 672 377 24 Antisense
CCTTTGCCACATACGGTTTCGCACA 226 269 47 Antisense
ATCAAGTTTTCGGTAGCTGCTGCTC 147 27 158 Antisense
AGATTTGTGCCACCAGAGTGTCGCA 139 67 184 Antisense
GAGTGTCGCAGTCTTTGCATCTATG 448 401 199 Antisense
AGAGTTGTGCTGATGCACGCCATCC 64 69 244 Antisense
GTTGCCGTCTCTACAAATACTTGCC 54 441 278 Antisense
TGTACATTGTGCGGCTCAAACCCAC 252 559 309 Antisense
ATGCTGCAGATCCAACGGAGTCGCC 295 43 345 Antisense
GTTGTGTGTCTCGCACGATGGGATC 264 437 457 Antisense
TGCAGTGTCATCAGTCTGGACTCAG 244 579 488 Antisense
Sequence Source Affymetrix Proprietary Database