[Home] | [Total List]

[172336_x_at]

Description C34D4.5 /REP_DB=WormBase Gene ID /WP=CE17499 /TR=Q18448 /GB=AAB00700.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 09      4grp_total > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 173
1 2 3 4 range
A 129
(-0.9)
A 		71.3
(-3)
A 		156.7
(0.2)
A 		233.1
(3)
A 		162
B 154.2
(3)
A 		115.2
(0.5)
A 		60
(-3)
A 		115.5
(0.5)
A 		94
C 76.3
(-3)
A 		130
(-0.8)
A 		120.5
(-1.2)
A 		223.9
(3)
P 		148
avr 119.8
(-2) 		105.5
(-3) 		112.4
(-2.5) 		190.8
(3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 124
1 2 3 4 5 6 range
A 161.4
(3)
A 		89.6
(-3)
A 		106.9
(-1.6)
A 		91.2
(-2.9)
A 		131.5
(0.5)
A 		99.5
(-2.2)
A 		72
B 123.8
(2.6)
A 		81.5
(-2.3)
A 		94
(-0.9)
A 		117.9
(1.9)
A 		127.5
(3)
A 		75.9
(-3)
A 		52
C 167.8
(1.4)
A 		163
(1.1)
A 		118.3
(-1.1)
A 		199.6
(3)
A 		81.5
(-3)
A 		127.8
(-0.6)
A 		118
avr 151
(3) 		111.4
(-1.8) 		106.4
(-2.4) 		136.2
(1.2) 		113.5
(-1.5) 		101.1
(-3) 		50
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 47
(3)
A 		15.5
(-3)
A 		41
(1.9)
A 		34.1
(0.5)
A 		32
B 49.2
(3)
A 		28.4
(-0.5)
A 		13.9
(-3)
A 		24.6
(-1.2)
A 		35
C 25.3
(-3)
A 		37.4
(1.3)
A 		42
(3)
A 		37.8
(1.5)
P 		17
avr 40.5
(3) 		27.1
(-3) 		32.3
(-0.7) 		32.2
(-0.7) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 29.8
(-0.6)
A 		31.9
(0.2)
A 		23.3
(-2.9)
A 		23.1
(-3)
A 		39.7
(3)
A 		24.2
(-2.6)
A 		17
B 43.1
(1.2)
A 		27.1
(-2.1)
A 		22.8
(-3)
A 		31.2
(-1.3)
A 		51.8
(3)
A 		28.3
(-1.9)
A 		29
C 62.2
(3)
A 		49.7
(0.9)
A 		30.1
(-2.4)
A 		40.1
(-0.7)
A 		26.4
(-3)
A 		42.8
(-0.3)
A 		36
avr 45
(3) 		36.2
(0.3) 		25.4
(-3) 		31.5
(-1.1) 		39.3
(1.3) 		31.8
(-1) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172336_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9307
Sequence Type Exemplar sequence
Representative Public ID C34D4.5 NCBI
Target Description C34D4.5 /REP_DB=WormBase Gene ID /WP=CE17499 /TR=Q18448 /GB=AAB00700.1 /SUBMIT=ST.LOUIS /CHR=4 /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_068720(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068720 NCBI Caenorhabditis elegans C34D4.5 (C34D4.5) mRNA, complete cds. 11/11 None
SNAP00000003803 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7145335:7147209:1 11/11 None
GENEFINDER00000003821 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7145335:7147209:1 11/11 None
C34D4.5 ENSEMBL cdna:known chromosome:CEL140:IV:7145335:7147209:1 gene:C34D4.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_075922 5/11 Cross Hyb Matching Probes A 
NM_066214 4/11 Cross Hyb Matching Probes A 
NM_059031 3/11 Cross Hyb Matching Probes A 
GENEFINDER00000028191 3/11 Cross Hyb Matching Probes None
SNAP00000028189 3/11 Cross Hyb Matching Probes None
SNAP00000043608 4/11 Cross Hyb Matching Probes None
GENEFINDER00000043621 4/11 Cross Hyb Matching Probes None
SNAP00000032856 4/11 Cross Hyb Matching Probes None
GENEFINDER00000032865 4/11 Cross Hyb Matching Probes None
SNAP00000032798 5/11 Cross Hyb Matching Probes None
SNAP00000021928 5/11 Cross Hyb Matching Probes None
GENEFINDER00000021982 5/11 Cross Hyb Matching Probes None
W09C3.8 3/11 Cross Hyb Matching Probes A 
F02E9.8 5/11 Cross Hyb Matching Probes A 
F56C9.2 4/11 Cross Hyb Matching Probes A 
Y75D11A.4 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7326870-7328744(+) 96.21 96.21
chrIV:7145340-7147215(+) 100.0 100.0
chrI:8441239-8442126(+) 45.33 45.33
Public Domain and Genome References
Ensembl C34D4.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB00700 Hypothetical protein C34D4.5 [Caenorhabditis elegans] ref|NP_501121.1| C34D4.5 [Caenorhabditis elegans] 0.0
blast NP_498615 F56C9.2 [Caenorhabditis elegans] 0.0
blast NP_500154 Y76B12C.5 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 6.0
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 3.1E-50
Sequence
Target Sequence 
>C. ELEGANS:172336_X_AT
tcgctatctgggtcgctggatcgacatttctggctcaattgacgaagaaatctcgaggag
aataagagctggttggggcgctctggttggaatcaaagaagtgttaagaatcatgccaaa
caaggaaagaataatcctcttcaaacaaaatgtgctcccagctctcctgtatgcaagtga
aacttggacatgtaatgctggatccacgctgagactcaaaagaactgtcaccggtctcat
cgacgctgcagaaattcgaggctggaacttcaacttggatcgttacctccttgcaaaaca
atcaagatttgcaggacacattctacggagagatccaaaccgttggacaaaaatctgcac
ggaatgggacccgagccacaacaaaaattggaaacgtgccgttggaggacagaagaaaag
atgggcaaaggacatcgacgaagaatacgcaagattccaccacaattccgccatgtcggg
acaagtcgtcgttgggagaagaagacttggaatgctcactccgaaggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGCTATCTGGGTCGCTGGATCGAC 638 599 1287 Antisense
GATCGACATTTCTGGCTCAATTGAC 484 417 1305 Antisense
TCCCAGCTCTCCTGTATGCAAGTGA 329 599 1442 Antisense
GTAATGCTGGATCCACGCTGAGACT 77 463 1478 Antisense
CAAAAGAACTGTCACCGGTCTCATC 230 191 1503 Antisense
GGTCTCATCGACGCTGCAGAAATTC 401 501 1519 Antisense
TCAACTTGGATCGTTACCTCCTTGC 32 631 1556 Antisense
GAATGGGACCCGAGCCACAACAAAA 480 331 1648 Antisense
AATACGCAAGATTCCACCACAATTC 258 173 1730 Antisense
CCACAATTCCGCCATGTCGGGACAA 37 275 1746 Antisense
GACTTGGAATGCTCACTCCGAAGGT 215 369 1790 Antisense
Sequence Source Affymetrix Proprietary Database