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[175561_s_at]

Description AV199221_rc /REP_DB=TREMBL Accession /GB=AV199221 /CHR=4 /FEA=Genomic Cluster /REVCOMP /DEF=Caenorhabditis elegans cDNA clone:yk542f1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 63      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 65      6grp_total > 63      4grp_total > 31      6grp_cgc > 92      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 716
1 2 3 4 range
A 1287.4
(3)
P 		817.7
(-1.8)
P 		695.9
(-3)
P 		1079.6
(0.9)
P 		592
B 1411.9
(3)
P 		733.4
(-3)
P 		757.1
(-2.8)
P 		1120.5
(0.4)
P 		679
C 1398.5
(3)
P 		825.9
(-1.9)
P 		701.3
(-3)
P 		1182.1
(1.1)
P 		697
avr 1365.9
(3) 		792.3
(-2.3) 		718.1
(-3) 		1127.4
(0.8) 		648

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 642
1 2 3 4 5 6 range
A 896.6
(-3)
P 		1081
(-0.7)
P 		1382.8
(3)
P 		1345.1
(2.5)
P 		984
(-1.9)
P 		1291.7
(1.9)
P 		486
B 1006.4
(-1.8)
P 		899.2
(-3)
P 		1439.3
(3)
P 		1178.7
(0.1)
P 		1162.1
(-0.1)
P 		1164.1
(-0.1)
P 		540
C 1312.3
(0.9)
P 		901
(-3)
P 		1538.3
(3)
P 		1321.7
(1)
P 		1122.8
(-0.9)
P 		1147.5
(-0.7)
P 		637
avr 1071.8
(-1.6) 		960.4
(-3) 		1453.5
(3) 		1281.8
(0.9) 		1089.6
(-1.4) 		1201.1
(-0.1) 		493
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 311
1 2 3 4 range
A 468.7
(3)
P 		177.5
(-2.6)
P 		181.9
(-2.5)
P 		158
(-3)
P 		311
B 450.2
(3)
P 		181.1
(-2.9)
P 		175.4
(-3)
P 		238.8
(-1.6)
P 		275
C 462.9
(3)
P 		237.4
(-2.1)
P 		244.4
(-2)
P 		199.3
(-3)
P 		264
avr 460.6
(3) 		198.7
(-3) 		200.6
(-3) 		198.7
(-3) 		262

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 321
1 2 3 4 5 6 range
A 165.3
(-3)
P 		384.5
(3)
P 		301.1
(0.7)
P 		341.1
(1.8)
P 		296.9
(0.6)
P 		314.5
(1.1)
P 		219
B 350.2
(-1.2)
P 		299.3
(-3)
P 		349.5
(-1.3)
P 		312.2
(-2.6)
P 		472.1
(3)
P 		434.1
(1.7)
P 		173
C 486.4
(3)
P 		274.9
(-2.8)
P 		391.5
(0.4)
P 		265.8
(-3)
P 		363.3
(-0.3)
P 		384.1
(0.2)
P 		221
avr 334
(-0.7) 		319.6
(-1.9) 		347.4
(0.5) 		306.4
(-3) 		377.4
(3) 		377.6
(3) 		71
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175561_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28232
Sequence Type Exemplar sequence
Representative Public ID AV199221 NCBI
Target Description AV199221_rc /REP_DB=TREMBL Accession /GB=AV199221 /CHR=4 /FEA=Genomic Cluster /REVCOMP /DEF=Caenorhabditis elegans cDNA clone:yk542f1 : 3prime 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_001026095(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026095 NCBI Caenorhabditis elegans UNCoordinated family member (unc-44) (unc-44) mRNA, complete cds. 11/11 None
SNAP00000023740 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5985571:6004017:1 11/11 None
GENEFINDER00000023991 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5985571:5987248:1 11/11 None
B0350.2a ENSEMBL cdna:known chromosome:CEL140:IV:5975560:5987464:1 gene:B0350.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177366 7 1 NM_001026095 175561_s_at (11), 176663_s_at (11)
NM_001026096 172153_x_at (11), 173125_s_at (11)
NM_001026097 171738_x_at (9), 172123_x_at (11), 172153_x_at (11), 173125_s_at (11), 174033_at (11), 181045_at (11)
NM_068497 171738_x_at (9), 172123_x_at (11), 172153_x_at (11), 173125_s_at (11)
NM_068500 172153_x_at (11), 173125_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5985631-5985909(+) 100.0 100.0
Public Domain and Genome References
Ensembl B0350.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA93443 Uncoordinated protein 44, isoform a [Caenorhabditis elegans] ref|NP_001021266.1| UNCoordinated family member (unc-44) [Caenorhabditis elegans] 0.0
blast AAA93444 Uncoordinated protein 44, isoform c [Caenorhabditis elegans] ref|NP_500898.1| UNCoordinated family member (unc-44) [Caenorhabditis elegans] gb|AAB41828.1| AO66 ankyrin [Caenorhabditis elegans] 0.0
blast AAM75382 Uncoordinated protein 44, isoform e [Caenorhabditis elegans] ref|NP_741409.1| UNCoordinated family member (unc-44) [Caenorhabditis elegans] 0.0
blast AAA93447 Uncoordinated protein 44, isoform f [Caenorhabditis elegans] ref|NP_001021268.1| UNCoordinated family member (unc-44) [Caenorhabditis elegans] 0.0
blast AAB41827 AO13 ankyrin [Caenorhabditis elegans] 0.0
blast CAE64691 Hypothetical protein CBG09473 [Caenorhabditis briggsae] 0.0
blast AAA93443 Uncoordinated protein 44, isoform a [Caenorhabditis elegans] ref|NP_001021266.1| UNCoordinated family member (unc-44) [Caenorhabditis elegans] 1.0E-129
Protein Domains
Database ID Description E-Value
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 6.19999980926514
Pfam IPR000488 EMBL-EBI Death domain 1.0E-20
Pfam IPR002110 EMBL-EBI Ankyrin 1.7
Pfam IPR002110 EMBL-EBI Ankyrin 4.4E-8
Pfam IPR002110 EMBL-EBI Ankyrin 1.5E-9
Pfam IPR002110 EMBL-EBI Ankyrin 4.7E-10
Pfam IPR002110 EMBL-EBI Ankyrin 5.2E-4
Pfam IPR002110 EMBL-EBI Ankyrin 0.048
Pfam IPR002110 EMBL-EBI Ankyrin 3.5E-11
Pfam IPR002110 EMBL-EBI Ankyrin 2.6E-7
Pfam IPR002110 EMBL-EBI Ankyrin 4.8E-9
Pfam IPR002110 EMBL-EBI Ankyrin 6.9E-6
Pfam IPR002110 EMBL-EBI Ankyrin 2.1E-9
Pfam IPR002110 EMBL-EBI Ankyrin 5.2E-10
Pfam IPR002110 EMBL-EBI Ankyrin 3.3E-10
Pfam IPR002110 EMBL-EBI Ankyrin 8.0E-11
Pfam IPR002110 EMBL-EBI Ankyrin 7.5E-10
Pfam IPR002110 EMBL-EBI Ankyrin 1.6E-7
Pfam IPR002110 EMBL-EBI Ankyrin 4.2E-11
Pfam IPR002110 EMBL-EBI Ankyrin 6.8E-7
Pfam IPR002110 EMBL-EBI Ankyrin 7.4E-11
Pfam IPR002110 EMBL-EBI Ankyrin 9.3E-8
Pfam IPR002110 EMBL-EBI Ankyrin 4.2E-7
Pfam IPR002110 EMBL-EBI Ankyrin 3.4E-10
Pfam IPR002110 EMBL-EBI Ankyrin 1.4E-9
Pfam IPR002110 EMBL-EBI Ankyrin 0.83
Pfam IPR000906 EMBL-EBI ZU5 domain 4.8E-62
Sequence
Target Sequence 
>C. ELEGANS:175561_S_AT
gtattcggtgcagttccatctgatggaacctctcacacagctattcatcatgtgaactcg
gccagtcattttcaagtggaatcttgggatggtgaacatgctgaacatccacaagaaagt
gaagagccaagaagattctcaatctttttggaagcaggaggagctgaaaaagatggatca
tctccatttgataatcaagaagaagatgaaccaattgccagctgtaaacaattcgaacgc
acccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATTCGGTGCAGTTCCATCTGATG 364 453 15 Antisense
ATCTGATGGAACCTCTCACACAGCT 586 33 32 Antisense
CCTCTCACACAGCTATTCATCATGT 86 269 43 Antisense
TTCATCATGTGAACTCGGCCAGTCA 160 689 58 Antisense
ACTCGGCCAGTCATTTTCAAGTGGA 49 101 70 Antisense
AGTGGAATCTTGGGATGGTGAACAT 630 57 89 Antisense
GGTGAACATGCTGAACATCCACAAG 225 501 105 Antisense
GATTCTCAATCTTTTTGGAAGCAGG 445 431 148 Antisense
GGATCATCTCCATTTGATAATCAAG 595 511 189 Antisense
AAGAAGATGAACCAATTGCCAGCTG 623 149 214 Antisense
GCTGTAAACAATTCGAACGCACCCG 595 295 235 Antisense
Sequence Source Affymetrix Proprietary Database