[Home] | [Total List]

[171827_x_at]

Description C58877_rc /REP_DB=TREMBL Accession /GB=C58877 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk377h6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 79      4grp_highest_8_8 > 54      4grp_high_8_8 > 10      6grp_highest_nonorm > 78      6grp_total > 59      4grp_total > 23      6grp_highest_sub > Cu      6grp_cgc > 39      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1064
1 2 3 4 range
A 1877.4
(2.4)
P 		1009.7
(-2.5)
P 		920.1
(-3)
P 		1984.5
(3)
P 		1064
B 1923.2
(3)
P 		1189.5
(-2.4)
P 		1106.6
(-3)
P 		1854.6
(2.5)
P 		817
C 1928
(3)
P 		1117.4
(-3)
P 		1126.6
(-2.9)
P 		1917.5
(2.9)
P 		811
avr 1909.5
(2.9) 		1105.5
(-2.6) 		1051.1
(-3) 		1918.9
(3) 		868

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 719
1 2 3 4 5 6 range
A 1306.9
(-2.1)
P 		1450.8
(-0.4)
P 		1546.3
(0.8)
P 		1573.3
(1.1)
P 		1227.3
(-3)
P 		1737.5
(3)
P 		510
B 1574.3
(1.5)
P 		1332.3
(-1.2)
P 		1445.6
(0.1)
P 		1164.6
(-3)
P 		1610.6
(1.9)
P 		1710.1
(3)
P 		546
C 1883.2
(3)
P 		1192.3
(-2.9)
P 		1448.8
(-0.7)
P 		1183.6
(-3)
P 		1875.7
(2.9)
P 		1803.2
(2.3)
P 		700
avr 1588.1
(0.8) 		1325.1
(-2.8) 		1480.2
(-0.7) 		1307.2
(-3) 		1571.2
(0.6) 		1750.3
(3) 		443
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 464
1 2 3 4 range
A 683.6
(3)
P 		219.2
(-3)
P 		240.5
(-2.7)
P 		290.5
(-2.1)
P 		464
B 613.3
(3)
P 		293.8
(-2.4)
P 		256.4
(-3)
P 		395.2
(-0.7)
P 		357
C 638.2
(3)
P 		321.3
(-3)
P 		392.7
(-1.6)
P 		323.3
(-3)
P 		317
avr 645
(3) 		278.1
(-3) 		296.5
(-2.7) 		336.3
(-2) 		367

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 460
1 2 3 4 5 6 range
A 240.9
(-3)
P 		516
(3)
P 		336.7
(-0.9)
P 		399
(0.4)
P 		370.3
(-0.2)
P 		423
(1)
P 		275
B 547.8
(1.2)
P 		443.5
(-0.7)
P 		351
(-2.3)
P 		308.5
(-3)
P 		654.4
(3)
P 		637.7
(2.7)
P 		346
C 698
(3)
P 		363.8
(-1.4)
P 		368.7
(-1.3)
P 		238
(-3)
P 		607
(1.8)
P 		603.6
(1.8)
P 		460
avr 495.6
(1.5) 		441.1
(0.2) 		352.1
(-2.1) 		315.2
(-3) 		543.9
(2.7) 		554.8
(3) 		240
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171827_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27735
Sequence Type Exemplar sequence
Representative Public ID C58877 NCBI
Target Description C58877_rc /REP_DB=TREMBL Accession /GB=C58877 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk377h6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070441
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000030807 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15270260:15272838:-1 None
NM_070441 NCBI Caenorhabditis elegans Conserved Cystein/Glycine domain protein family member (ccg-1) (ccg-1) mRNA, complete cds. A 
Y73F8A.6 ENSEMBL cdna:known chromosome:CEL140:IV:15269796:15275766:-1 gene:Y73F8A.6 None
GENEFINDER00000030907 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15270260:15273509:-1 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
chrIV:15270192-15271906(-) 96.9 96.9
Public Domain and Genome References
Gene Title
Gene Symbol ccg-1
Ensembl Y73F8A.6
Entrez Gene 178426 Entrez gene
SwissProt Q9NA39 EMBL-EBI
WormBase CE25600 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB70225 Hypothetical protein Y73F8A.6 [Caenorhabditis elegans] ref|NP_502842.1| Conserved Cystein/Glycine domain protein family member (ccg-1) [Caenorhabditis elegans] 1.0E-174
blast CAB70225 Hypothetical protein Y73F8A.6 [Caenorhabditis elegans] ref|NP_502842.1| Conserved Cystein/Glycine domain protein family member (ccg-1) [Caenorhabditis elegans] 1.0E-165
blast CAE68094 Hypothetical protein CBG13732 [Caenorhabditis briggsae] 1.0E-158
blast CAE68094 Hypothetical protein CBG13732 [Caenorhabditis briggsae] 1.0E-155
blast CAB70225 Hypothetical protein Y73F8A.6 [Caenorhabditis elegans] ref|NP_502842.1| Conserved Cystein/Glycine domain protein family member (ccg-1) [Caenorhabditis elegans] 1.0E-121
blast CAE68094 Hypothetical protein CBG13732 [Caenorhabditis briggsae] 1.0E-113
blast AAT02162 hypothetical protein L3ni51 [Dictyocaulus viviparus] 1.0E-111
Sequence
Target Sequence 
>C. ELEGANS:171827_X_AT
gcaggtcagccaaattatgacgtcagagatccagtgagagagcgcgcccaagccaaatac
gccgcagttgttgatgagctaaagaacaagttcaaggggcttaaggaaggatgtttccca
agaccaaaaggatgtctcatgtgttattggnaaactccagaaggacgtgatattactgag
aggagaatgaaggatgttgactgcaagtgcaaggaaggagaacgtggacctgagtgccca
gctaaataa

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGGTCAGCCAAATTATGACGTCA 275 311 13 Antisense
TTATGACGTCAGAGATCCAGTGAGA 539 679 27 Antisense
CAGAGATCCAGTGAGAGAGCGCGCC 692 205 36 Antisense
CCAAGCCAAATACGCCGCAGTTGTT 91 277 60 Antisense
TACGCCGCAGTTGTTGATGAGCTAA 462 649 70 Antisense
GAAGGATGTTTCCCAAGACCAAAAG 398 333 118 Antisense
AAAAGGATGTCTCATGTGTTATTGG 504 129 138 Antisense
GAAGGACGTGATATTACTGAGAGGA 663 333 172 Antisense
GAAGGATGTTGACTGCAAGTGCAAG 595 333 201 Antisense
AGGAGAACGTGGACCTGAGTGCCCA 174 57 228 Antisense
TGGACCTGAGTGCCCAGCTAAATAA 69 549 237 Antisense
Sequence Source Affymetrix Proprietary Database