[Home] | [Total List]

[173485_s_at]

Description C49759 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0546.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49759 /WB_GENE_ID=B0546.4 /WP=CE16795 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk473f8 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 49      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 77      6grp_total > 39      4grp_total > 12      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2194
1 2 3 4 range
A 1247.2
(-1.1)
P 		608.1
(-2.9)
P 		569.1
(-3)
P 		2657.2
(3)
P 		2088
B 1184.8
(-0.9)
P 		679.3
(-2.4)
P 		462.8
(-3)
P 		2563.7
(3)
P 		2101
C 1253.8
(-0.4)
P 		623.1
(-2.8)
P 		570.6
(-3)
P 		2175.6
(3)
P 		1605
avr 1228.6
(-0.8) 		636.8
(-2.7) 		534.2
(-3) 		2465.5
(3) 		1931

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1098
1 2 3 4 5 6 range
A 1913.9
(3)
P 		934.2
(-2.7)
P 		880.5
(-3)
P 		1180.3
(-1.3)
P 		1690.5
(1.7)
P 		1560.5
(0.9)
P 		1033
B 1201.2
(-0.4)
P 		995.3
(-1.8)
P 		816
(-3)
P 		1356.7
(0.6)
P 		1710.9
(3)
P 		1378.6
(0.8)
P 		895
C 1433.1
(2.4)
P 		1012.9
(-3)
P 		1062.2
(-2.4)
P 		1381.2
(1.7)
P 		1482.3
(3)
P 		1428.3
(2.3)
P 		469
avr 1516.1
(2.1) 		980.8
(-2.5) 		919.6
(-3) 		1306.1
(0.3) 		1627.9
(3) 		1455.8
(1.5) 		708
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 439
1 2 3 4 range
A 454.1
(3)
P 		132
(-3)
P 		148.8
(-2.7)
P 		389
(1.8)
P 		322
B 377.8
(0.7)
P 		167.8
(-2.2)
P 		107.2
(-3)
P 		546.3
(3)
P 		439
C 415
(3)
P 		179.1
(-3)
P 		198.9
(-2.5)
P 		366.8
(1.8)
P 		236
avr 415.6
(2.6) 		159.6
(-2.8) 		151.6
(-3) 		434
(3) 		282

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 503
1 2 3 4 5 6 range
A 352.8
(0)
P 		332.3
(-0.4)
P 		191.8
(-3)
P 		299.3
(-1)
P 		510.1
(3)
P 		379.9
(0.5)
P 		318
B 418
(-0.3)
P 		331.3
(-1.4)
P 		198.2
(-3)
P 		359.3
(-1.1)
P 		695.1
(3)
P 		514.1
(0.8)
P 		497
C 531.2
(3)
P 		309.1
(-2.1)
P 		270.3
(-3)
P 		277.8
(-2.8)
P 		479.7
(1.8)
P 		478.1
(1.8)
P 		261
avr 434
(0.8) 		324.2
(-1.2) 		220.1
(-3) 		312.1
(-1.4) 		561.6
(3) 		457.4
(1.2) 		342
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173485_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24970
Sequence Type Exemplar sequence
Representative Public ID C49759 NCBI
Target Description C49759 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0546.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49759 /WB_GENE_ID=B0546.4 /WP=CE16795 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk473f8 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_182297(10), NM_067934(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182297 NCBI Caenorhabditis elegans B0546.4b (B0546.4) mRNA, complete cds. 10/11 None
NM_067934 NCBI Caenorhabditis elegans B0546.4a (B0546.4) mRNA, complete cds. 11/11 None
SNAP00000001410 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3383177:3384113:-1 11/11 None
GENEFINDER00000001414 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3383177:3384113:-1 11/11 None
B0546.4b ENSEMBL cdna:known chromosome:CEL140:IV:3382945:3384143:-1 gene:B0546.4 10/11 None
B0546.4a ENSEMBL cdna:known chromosome:CEL140:IV:3382957:3384144:-1 gene:B0546.4 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
chrIV:3383029-3384120(-) 100.0 100.0
Public Domain and Genome References
Ensembl B0546.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB92012 Hypothetical protein B0546.4a [Caenorhabditis elegans] ref|NP_500335.1| B0546.4a [Caenorhabditis elegans] sp|O44440|YPL2_CAEEL Yippee-like protein B0546.4 7.0E-88
blast AAO38680 Hypothetical protein B0546.4b [Caenorhabditis elegans] ref|NP_872097.1| B0546.4b [Caenorhabditis elegans] 6.0E-76
blast AAB92012 Hypothetical protein B0546.4a [Caenorhabditis elegans] ref|NP_500335.1| B0546.4a [Caenorhabditis elegans] sp|O44440|YPL2_CAEEL Yippee-like protein B0546.4 4.0E-69
blast AAO38680 Hypothetical protein B0546.4b [Caenorhabditis elegans] ref|NP_872097.1| B0546.4b [Caenorhabditis elegans] 7.0E-69
Protein Domains
Database ID Description E-Value
Pfam IPR004910 EMBL-EBI Yippee-like protein 2.9E-76
Sequence
Target Sequence 
>C. ELEGANS:173485_S_AT
tgcccgtggttcactgtacggatgcgtagtgtgcaatacgtacctcacgtgctccaaaga
gctcacgagcaaagccttcaccggtagtaccggtccggcgaccctgttcaaacgtgcctg
gaacgtagtttacgggcggtgtgagcaccggaaaatgacaaccggttggcatacggttcg
agatgttttctgcgtgacttgcaagcaaaaactaggctggatgtacgagatggcggtgtc
ggagtcgcagacatacaaggagacgcaggttatcattgaaaatgcgaatttcgagaagat
tgccggtgcgattaaagatccgttgggcgaagatcgccaggaagccccgccagcaccaaa
cttggagatgagccgctacccactggaagcagaaaagaaatcacgtccacaataccgcac
ggtttcagtttcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCCGTGGTTCACTGTACGGATGC 374 585 43 Antisense
GTAGTGTGCAATACGTACCTCACGT 247 455 68 Antisense
GTACCTCACGTGCTCCAAAGAGCTC 499 457 82 Antisense
ACCCTGTTCAAACGTGCCTGGAACG 627 89 143 Antisense
GTAGTTTACGGGCGGTGTGAGCACC 217 455 167 Antisense
GGTTCGAGATGTTTTCTGCGTGACT 605 507 217 Antisense
GAGATGGCGGTGTCGGAGTCGCAGA 125 397 269 Antisense
GGGCGAAGATCGCCAGGAAGCCCCG 187 493 367 Antisense
AACTTGGAGATGAGCCGCTACCCAC 287 139 401 Antisense
AGAAATCACGTCCACAATACCGCAC 2 73 438 Antisense
CAATACCGCACGGTTTCAGTTTCCT 47 173 452 Antisense
Sequence Source Affymetrix Proprietary Database