[Home] | [Total List]

[176605_s_at]

Description F18A1.3 /REP_DB=WormBase Gene ID /WP=CE04403 /CHR=2 /FEA=Sanger Annotation /DEF=locus:lir-1 (ST.LOUIS)
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 0      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 65      6grp_total > 09      4grp_total > 50      6grp_cgc > 60      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 706
1 2 3 4 range
A 1069.5
(-2.2)
P 		1533.8
(3)
P 		1231
(-0.4)
P 		995.8
(-3)
P 		538
B 971
(-1.6)
P 		1313.3
(3)
P 		1123.4
(0.4)
P 		869.1
(-3)
P 		444
C 1002.3
(-0.4)
P 		1075.1
(0.7)
P 		1224.4
(3)
P 		828.2
(-3)
P 		396
avr 1014.3
(-1.3) 		1307.4
(3) 		1192.9
(1.3) 		897.7
(-3) 		410

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 998
1 2 3 4 5 6 range
A 1224
(-1.8)
P 		1408.7
(-0.5)
P 		1073.1
(-2.8)
P 		1939
(3)
P 		1036.1
(-3)
P 		1320.7
(-1.1)
P 		903
B 1271.9
(1.7)
P 		1108.6
(-0.6)
P 		1337.3
(2.7)
P 		941.1
(-3)
P 		1360.5
(3)
P 		988
(-2.3)
P 		419
C 1589.3
(3)
P 		1053.4
(-3)
P 		1560.8
(2.7)
P 		1258.1
(-0.7)
P 		1444.9
(1.4)
P 		1115
(-2.3)
P 		536
avr 1361.7
(2.6) 		1190.2
(-1.8) 		1323.7
(1.6) 		1379.4
(3) 		1280.5
(0.5) 		1141.2
(-3) 		238
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 287
1 2 3 4 range
A 389.4
(3)
P 		332.9
(1.6)
P 		321.8
(1.3)
P 		145.8
(-3)
P 		244
B 309.6
(2.4)
P 		324.4
(3)
P 		260.3
(0.2)
P 		185.2
(-3)
P 		139
C 331.8
(1)
P 		309.1
(0.5)
P 		426.7
(3)
P 		139.7
(-3)
P 		287
avr 343.6
(3) 		322.1
(2.3) 		336.3
(2.8) 		156.9
(-3) 		187

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 364
1 2 3 4 5 6 range
A 225.6
(-3)
P 		501
(3)
P 		233.7
(-2.8)
P 		491.8
(2.8)
P 		312.6
(-1.1)
P 		321.5
(-0.9)
P 		275
B 442.6
(0.8)
P 		369
(-0.6)
P 		324.7
(-1.5)
P 		249.3
(-3)
P 		552.8
(3)
P 		368.4
(-0.6)
P 		304
C 589.1
(3)
P 		321.4
(-1.8)
P 		397.3
(-0.4)
P 		253
(-3)
P 		467.5
(0.8)
P 		373.2
(-0.9)
P 		336
avr 419.1
(1.8) 		397.1
(0.7) 		318.6
(-3) 		331.4
(-2.4) 		444.3
(3) 		354.4
(-1.3) 		126
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176605_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5268
Sequence Type Exemplar sequence
Representative Public ID F18A1.3 NCBI
Target Description F18A1.3 /REP_DB=WormBase Gene ID /WP=CE04403 /CHR=2 /FEA=Sanger Annotation /DEF=locus:lir-1 (ST.LOUIS)
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001026923(10), NM_001026922(11), NM_001026925(11), NM_001026924(9), AJ012485(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026923 NCBI Caenorhabditis elegans LIn-26 Related family member (lir-1) (lir-1) mRNA, complete cds. 10/11 None
NM_001026922 NCBI Caenorhabditis elegans LIn-26 Related family member (lir-1) (lir-1) mRNA, complete cds. 11/11 None
NM_001026925 NCBI Caenorhabditis elegans LIn-26 Related family member (lir-1) (lir-1) mRNA, complete cds. 11/11 None
NM_001026924 NCBI Caenorhabditis elegans LIn-26 Related family member (lir-1) (lir-1) mRNA, complete cds. 9/11 None
AJ012485 NCBI Caenorhabditis elegans mRNA for LIR-1A protein. 10/11 None
SNAP00000013715 ENSEMBL cdna:SNAP chromosome:CEL140:II:7680312:7682000:1 11/11 None
GENEFINDER00000013726 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7679466:7682118:1 10/11 None
F18A1.3a ENSEMBL cdna:known chromosome:CEL140:II:7671928:7682276:1 gene:F18A1.3 11/11 None
F18A1.3b.2 ENSEMBL cdna:known chromosome:CEL140:II:7671928:7682276:1 gene:F18A1.3 10/11 None
F18A1.3b.1 ENSEMBL cdna:known chromosome:CEL140:II:7671961:7682831:1 gene:F18A1.3 10/11 None
F18A1.3d ENSEMBL cdna:known chromosome:CEL140:II:7671961:7682257:1 gene:F18A1.3 11/11 None
F18A1.3c ENSEMBL cdna:known chromosome:CEL140:II:7671961:7681830:1 gene:F18A1.3 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026921 2/11 Cross Hyb Matching Probes None
F18A1.2.3 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7680628-7681997(+) 100.0 100.0
Public Domain and Genome References
Ensembl F18A1.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK67249 Lin-26 related protein 1, isoform b [Caenorhabditis elegans] ref|NP_001022094.1| LIn-26 Related family member (lir-1) [Caenorhabditis elegans] emb|CAA10049.1| LIR-1A protein [Caenorhabditis elegans] 1.0E-161
blast AAT81202 Lin-26 related protein 1, isoform d [Caenorhabditis elegans] ref|NP_001022096.1| LIn-26 Related family member (lir-1) [Caenorhabditis elegans] 1.0E-155
blast AAT81202 Lin-26 related protein 1, isoform d [Caenorhabditis elegans] ref|NP_001022096.1| LIn-26 Related family member (lir-1) [Caenorhabditis elegans] 1.0E-152
blast AAK67250 Lin-26 related protein 1, isoform a [Caenorhabditis elegans] ref|NP_001022093.1| LIn-26 Related family member (lir-1) [Caenorhabditis elegans] emb|CAA10050.1| LIR-1C protein [Caenorhabditis elegans] 1.0E-152
Sequence
Target Sequence 
>C. ELEGANS:176605_S_AT
gatggctccaggacaaggtcagcatattctccaacaacatcagattccatcaacatcgtc
atacacaaacaattcgtttatctacatcaaaagtgatccacaatacaaagatgaaccaca
acaacaatccaatcaattcgatgccactgtgaactctgttgctcatggacaagctggact
ttcaacactagaaatgttcgcttgtaatggatctccgaacggtggtgatgtacttcgcag
aaagacgccgtctcggaaagctgaagattcaataaaagctacgtgtaaagtatgtggaca
tgatgtaatgtattctcctcaaaggacttggaacttgatgcgtcacgtatggattatgca
ccaatcatcaaaaccgaatcagtgttcaatatgcggatattctcacatcaagccatatgt
taggaaacatatcgagtctcagcataagcatgattcaaatgcaacgataattgacttaaa
atcaccagaactagaagctgaatggagtcaattgttagatcaatgcttcggagtcacata
tcgaaagtggaagcatcataaggaggatacgcagcacaccggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGGCTCCAGGACAAGGTCAGCAT 477 405 489 Antisense
AGGTCAGCATATTCTCCAACAACAT 708 57 504 Antisense
ACATCAGATTCCATCAACATCGTCA 639 105 525 Antisense
AATCCAATCAATTCGATGCCACTGT 113 167 614 Antisense
CCACTGTGAACTCTGTTGCTCATGG 538 273 632 Antisense
GGACAAGCTGGACTTTCAACACTAG 42 527 655 Antisense
AACGGTGGTGATGTACTTCGCAGAA 510 143 706 Antisense
GAAAGACGCCGTCTCGGAAAGCTGA 36 359 728 Antisense
ATGCGGATATTCTCACATCAAGCCA 134 43 879 Antisense
GTTAGATCAATGCTTCGGAGTCACA 438 445 1002 Antisense
TAAGGAGGATACGCAGCACACCGGT 228 635 1047 Antisense
Sequence Source Affymetrix Proprietary Database