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[191870_s_at]

Description T13C2.4 /REP_DB=WormBase Gene ID /WP=CE04940 /TR=Q22453 /GB=AAA81134.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=LDL receptor-related protein
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 38      4grp_highest_8_8 > 30      4grp_high_8_8 > 05      6grp_highest_nonorm > 74      6grp_total > 38      4grp_total > 03      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 428
1 2 3 4 range
A 687.3
(2.9)
P 		476.8
(-3)
P 		528.8
(-1.5)
P 		689.9
(3)
P 		213
B 553.9
(-3)
P 		563.8
(-2.7)
P 		560.5
(-2.8)
P 		752.2
(3)
P 		198
C 535
(-3)
P 		572.7
(-2.4)
P 		590.1
(-2.1)
P 		904.5
(3)
P 		370
avr 592.1
(-1.7) 		537.8
(-3) 		559.8
(-2.5) 		782.2
(3) 		244

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 364
1 2 3 4 5 6 range
A 720.5
(3)
P 		634.9
(0.3)
P 		616.3
(-0.3)
P 		530.1
(-3)
P 		688.6
(2)
P 		633.9
(0.3)
P 		190
B 833.4
(3)
P 		680.7
(0.5)
P 		645.1
(-0.1)
P 		582.1
(-1.1)
P 		469.8
(-3)
P 		713.5
(1)
P 		364
C 736.3
(2.1)
P 		676.1
(0.8)
P 		495.8
(-3)
P 		569.4
(-1.4)
P 		614.2
(-0.5)
P 		778.5
(3)
P 		283
avr 763.4
(3) 		663.9
(0.1) 		585.7
(-2.3) 		560.5
(-3) 		590.9
(-2.1) 		708.6
(1.4) 		203
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 250.3
(3)
P 		103.5
(-2.9)
P 		138.2
(-1.5)
P 		101
(-3)
P 		149
B 176.6
(3)
P 		139.2
(-1.8)
P 		129.9
(-3)
P 		160.3
(0.9)
P 		47
C 177.1
(-0.2)
P 		164.7
(-1.6)
P 		205.7
(3)
P 		152.5
(-3)
P 		53
avr 201.3
(3) 		135.8
(-3) 		157.9
(-1) 		137.9
(-2.8) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 132.8
(-3)
P 		225.8
(3)
P 		134.2
(-2.9)
P 		134.4
(-2.9)
P 		207.8
(1.8)
P 		154.3
(-1.6)
P 		93
B 290
(3)
P 		226.6
(0.2)
P 		156.6
(-2.9)
P 		154.2
(-3)
P 		190.9
(-1.4)
P 		266.1
(1.9)
P 		136
C 272.9
(3)
P 		206.3
(0.5)
P 		126.2
(-2.6)
P 		114.5
(-3)
P 		198.7
(0.2)
P 		260.6
(2.5)
P 		158
avr 231.9
(3) 		219.6
(2.2) 		139
(-2.7) 		134.4
(-3) 		199.1
(1) 		227
(2.7) 		98
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191870_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5343
Sequence Type Exemplar sequence
Representative Public ID T13C2.4 NCBI
Target Description T13C2.4 /REP_DB=WormBase Gene ID /WP=CE04940 /TR=Q22453 /GB=AAA81134.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=LDL receptor-related protein
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 identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_062986(11), NM_182223(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062986 NCBI Caenorhabditis elegans T13C2.6a (T13C2.6) mRNA, complete cds. 11/11 A 
NM_182223 NCBI Caenorhabditis elegans T13C2.6b (T13C2.6) mRNA, complete cds. 11/11 A 
SNAP00000037673 ENSEMBL cdna:SNAP chromosome:CEL140:II:6783399:6787626:1 11/11 None
GENEFINDER00000037680 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6783399:6787626:1 11/11 None
T13C2.6a.2 ENSEMBL cdna:known chromosome:CEL140:II:6783355:6788200:1 gene:T13C2.6 11/11 A 
T13C2.6a.1 ENSEMBL cdna:known chromosome:CEL140:II:6783357:6788200:1 gene:T13C2.6 11/11 A 
T13C2.6b ENSEMBL cdna:known chromosome:CEL140:II:6783357:6787626:1 gene:T13C2.6 11/11 A 
T13C2.6a.3 ENSEMBL cdna:known chromosome:CEL140:II:6783360:6788461:1 gene:T13C2.6 11/11 A 
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
chrII:6776501-6787621(+) 96.12 99.17
Public Domain and Genome References
Ensembl T13C2.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAS80338 Hypothetical protein T13C2.6a [Caenorhabditis elegans] ref|NP_495387.2| T13C2.6a [Caenorhabditis elegans] 0.0
blast AAS80339 Hypothetical protein T13C2.6b [Caenorhabditis elegans] ref|NP_872023.2| T13C2.6b [Caenorhabditis elegans] 0.0
blast T16860 hypothetical protein T13C2.4 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 5.8E-4
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.8E-16
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.4E-11
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.9E-12
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.7E-14
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.2E-16
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.5E-13
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.3E-4
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 4.5E-12
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 7.8E-15
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 1.7E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 5.8E-4
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.2E-16
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 7.9E-11
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.9E-12
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.7E-14
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.2E-16
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.5E-13
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.3E-4
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 4.5E-12
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 7.8E-15
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 1.7E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495387.2 1 819-841
NP_872023.2 1 821-843
T13C2.6a.2 1 819-841
T13C2.6a.1 1 819-841
T13C2.6b 1 821-843
T13C2.6a.3 1 819-841
SNAP00000037673 1 819-841
GENEFINDER00000037680 1 819-841
Sequence
Target Sequence 
>C. ELEGANS:191870_S_AT
aaatccggaatctcgatgttcacgattttccttcttttatgtgttggtggagttgtggcc
gctggatttgtgattgttcgtcggaagatgggacctcgtacatttaccgctctcaatttt
gacaatccaatttatcgtcgaaccaccgaagaagctgatcatcagatggaagatccattc
cgtgatccttttgctgaaccacggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATCCGGAATCTCGATGTTCACGA 623 115 3802 Antisense
ATGTTCACGATTTTCCTTCTTTTAT 316 47 3817 Antisense
GATTTTCCTTCTTTTATGTGTTGGT 463 429 3825 Antisense
GGCCGCTGGATTTGTGATTGTTCGT 279 543 3858 Antisense
GAAGATGGGACCTCGTACATTTACC 623 283 3885 Antisense
GTACATTTACCGCTCTCAATTTTGA 388 459 3899 Antisense
ACCGCTCTCAATTTTGACAATCCAA 305 89 3907 Antisense
ACAATCCAATTTATCGTCGAACCAC 384 113 3923 Antisense
CGAACCACCGAAGAAGCTGATCATC 69 253 3940 Antisense
GGAAGATCCATTCCGTGATCCTTTT 577 531 3969 Antisense
GTGATCCTTTTGCTGAACCACGGAA 521 483 3983 Antisense
Sequence Source Affymetrix Proprietary Database