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[180490_s_at]

Description F58A3.1A /REP_DB=WormBase Gene ID /WP=CE11350 /TR=Q9U3E2 /GB=CAB02669.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 04      4grp_highest_8_8 > 56      4grp_high_8_8 > 35      6grp_highest_nonorm > 21      6grp_total > 14      4grp_total > 44      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1015
1 2 3 4 range
A 1629.6
(0.1)
P 		2122.3
(3)
P 		1107.3
(-3)
P 		1336.8
(-1.6)
P 		1015
B 1639.6
(2.6)
P 		1666.8
(3)
P 		1205.4
(-3)
P 		1366.7
(-0.9)
P 		461
C 1942.3
(3)
P 		1437.4
(-0.9)
P 		1210.7
(-2.7)
P 		1168.7
(-3)
P 		774
avr 1737.2
(2.9) 		1742.2
(3) 		1174.5
(-3) 		1290.7
(-1.8) 		568

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 921
1 2 3 4 5 6 range
A 1672.6
(3)
P 		1640
(2.7)
P 		1102.7
(-3)
P 		1162
(-2.4)
P 		1118.5
(-2.8)
P 		1111.7
(-2.9)
P 		570
B 1432.3
(3)
P 		1143
(0.2)
P 		1235.8
(1.1)
P 		1217.9
(0.9)
P 		974.3
(-1.5)
P 		819.2
(-3)
P 		613
C 1479.3
(3)
P 		1258.9
(1.2)
P 		1375.5
(2.1)
P 		1052.7
(-0.5)
P 		1064.9
(-0.4)
P 		751.3
(-3)
P 		728
avr 1528.1
(3) 		1347.3
(1.3) 		1238
(0.3) 		1144.2
(-0.6) 		1052.6
(-1.5) 		894.1
(-3) 		634
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 447
1 2 3 4 range
A 593.3
(3)
P 		460.7
(1)
P 		289.5
(-1.6)
P 		195.7
(-3)
P 		398
B 522.8
(3)
P 		411.7
(0.3)
P 		279.3
(-3)
P 		291.3
(-2.7)
P 		244
C 643
(3)
P 		413.3
(-0.1)
P 		422
(0)
P 		197.1
(-3)
P 		446
avr 586.4
(3) 		428.6
(0.4) 		330.3
(-1.3) 		228
(-3) 		358

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 372
1 2 3 4 5 6 range
A 308.3
(-1.8)
P 		583.3
(3)
P 		240.1
(-3)
P 		294.7
(-2)
P 		337.5
(-1.3)
P 		270.7
(-2.5)
P 		343
B 498.4
(3)
P 		380.5
(-0.6)
P 		300.1
(-3)
P 		322.6
(-2.3)
P 		395.8
(-0.1)
P 		305.5
(-2.8)
P 		198
C 548.3
(3)
P 		384.1
(0.1)
P 		350.1
(-0.5)
P 		211.7
(-3)
P 		344.6
(-0.6)
P 		251.5
(-2.3)
P 		337
avr 451.7
(3) 		449.3
(2.9) 		296.8
(-2.3) 		276.3
(-3) 		359.3
(-0.2) 		275.9
(-3) 		176
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180490_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17184
Sequence Type Exemplar sequence
Representative Public ID F58A3.1A NCBI
Target Description F58A3.1A /REP_DB=WormBase Gene ID /WP=CE11350 /TR=Q9U3E2 /GB=CAB02669.1 /SUBMIT=HINXTON /CHR=X /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_077443(11), NM_077444(11), NM_077445(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077443 NCBI Caenorhabditis elegans LIM domain Binding Protein family member (ldb-1) (ldb-1) mRNA, complete cds. 11/11 None
NM_077444 NCBI Caenorhabditis elegans LIM domain Binding Protein family member (ldb-1) (ldb-1) mRNA, complete cds. 11/11 None
NM_077445 NCBI Caenorhabditis elegans LIM domain Binding Protein family member (ldb-1) (ldb-1) mRNA, complete cds. 11/11 None
SNAP00000041420 ENSEMBL cdna:SNAP chromosome:CEL140:X:11036984:11039882:1 11/11 None
GENEFINDER00000041421 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11036984:11039882:1 11/11 None
F58A3.1c ENSEMBL cdna:known chromosome:CEL140:X:11028839:11040534:1 gene:F58A3.1 11/11 None
F58A3.1a.1 ENSEMBL cdna:known chromosome:CEL140:X:11028876:11039882:1 gene:F58A3.1 11/11 None
F58A3.1b ENSEMBL cdna:known chromosome:CEL140:X:11028889:11039882:1 gene:F58A3.1 11/11 None
F58A3.1a.3 ENSEMBL cdna:known chromosome:CEL140:X:11036584:11039882:1 gene:F58A3.1 11/11 None
F58A3.1a.2 ENSEMBL cdna:known chromosome:CEL140:X:11036976:11039882:1 gene:F58A3.1 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
chrX:11037124-11039882(+) 100.0 100.0
Public Domain and Genome References
Ensembl F58A3.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB54257 Hypothetical protein F58A3.1c [Caenorhabditis elegans] ref|NP_509844.3| LIM domain Binding Protein family member (ldb-1) [Caenorhabditis elegans] 0.0
blast AAB38367 F58A3.1b [Caenorhabditis elegans] 0.0
blast CAB02672 Hypothetical protein F58A3.1b [Caenorhabditis elegans] ref|NP_509845.1| LIM domain Binding Protein family member (ldb-1) [Caenorhabditis elegans] 0.0
blast CAB02669 Hypothetical protein F58A3.1a [Caenorhabditis elegans] ref|NP_509846.1| LIM domain Binding Protein family member (ldb-1) [Caenorhabditis elegans] gb|AAB38366.1| F58A3.1a [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002691 EMBL-EBI LIM binding protein 1.0E-126
Pfam IPR002691 EMBL-EBI LIM binding protein 1.0E-126
Pfam IPR002691 EMBL-EBI LIM binding protein 1.0E-126
Pfam IPR002691 EMBL-EBI LIM binding protein 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:180490_S_AT
gaaccatttcccgagtcgagaactcccaatatgatccgaatgcaatgcagatgcaatccc
tcggccaggggccaaactcatcaatgaatatcaatggtcgaaatatgatgaatcagcatc
atccaggaatgcaaccacctccaggccaacaacacatgccgccacattccatgggcagtc
agatgccaacatctatgcacaatccgatgcacatgcctcctggatccatgcaaggacacg
gtggcatgccaccaatgcctagcacaatggcgaatcagatgccaccgcctaatttgccac
ctcacacaatgtctaatcagatgccgaatagtcggatgccaccaatgcaaggacaaatgc
caccatccggaatgcctggtcagatgtcaaatccaaatatgatgggaagtggtatgccac
cgatgtcaatgtctagtcagatgccgggttctatgtcaaaccctatgccgaatcaaatgc
ctggtggaatgcaaatgaatcaaatgccgccgcccaactattcacaatatactggcggac
ctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACCATTTCCCGAGTCGAGAACTC 332 345 1205 Antisense
TCGGCCAGGGGCCAAACTCATCAAT 194 601 1265 Antisense
CCGCCACATTCCATGGGCAGTCAGA 28 263 1363 Antisense
ATGCACAATCCGATGCACATGCCTC 604 43 1399 Antisense
GCCTCCTGGATCCATGCAAGGACAC 704 281 1419 Antisense
CATGCCACCAATGCCTAGCACAATG 375 211 1449 Antisense
TTGCCACCTCACACAATGTCTAATC 341 701 1498 Antisense
GGTATGCCACCGATGTCAATGTCTA 390 505 1615 Antisense
GTCTAGTCAGATGCCGGGTTCTATG 695 421 1635 Antisense
TCTATGTCAAACCCTATGCCGAATC 586 613 1654 Antisense
ATTCACAATATACTGGCGGACCTCC 481 11 1724 Antisense
Sequence Source Affymetrix Proprietary Database