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[171929_x_at]

Description AV184448_rc /REP_DB=TREMBL Accession /GB=AV184448 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk664f9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 84      6grp_high1_10_10 > 57      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 81      6grp_total > 58      4grp_total > 31      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 362.5
(2.6)
P 		368.5
(3)
P 		276
(-3)
P 		282.3
(-2.6)
P 		93
B 358.1
(3)
P 		168.3
(-3)
P 		267.5
(0.1)
P 		323.7
(1.9)
P 		190
C 251.3
(1.5)
P 		237.8
(0.3)
P 		202.4
(-3)
P 		267.2
(3)
P 		65
avr 324
(3) 		258.2
(-2.2) 		248.6
(-3) 		291.1
(0.4) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 182
1 2 3 4 5 6 range
A 323.5
(3)
P 		220
(-3)
P 		283.3
(0.7)
P 		231.5
(-2.3)
P 		226.5
(-2.6)
P 		316.3
(2.6)
P 		104
B 299
(-0.6)
P 		278.1
(-1.3)
P 		284.3
(-1.1)
P 		228
(-3)
P 		277.1
(-1.3)
P 		401.9
(3)
P 		174
C 366.1
(1.9)
P 		228.5
(-2.7)
P 		244.7
(-2.2)
P 		221
(-3)
P 		243.1
(-2.2)
P 		397.4
(3)
P 		176
avr 329.5
(1.2) 		242.2
(-2.4) 		270.8
(-1.2) 		226.8
(-3) 		248.9
(-2.1) 		371.9
(3) 		145
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 132
(3)
P 		80
(-0.4)
P 		72.1
(-1)
P 		41.3
(-3)
P 		91
B 114.2
(3)
P 		41.6
(-3)
P 		62
(-1.3)
P 		69
(-0.7)
P 		73
C 83.2
(3)
P 		68.4
(0.7)
P 		70.5
(1)
P 		45.1
(-3)
P 		38
avr 109.8
(3) 		63.3
(-1.8) 		68.2
(-1.3) 		51.8
(-3) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 59.6
(-2.7)
P 		78.3
(3)
P 		61.7
(-2.1)
P 		58.7
(-3)
P 		68.3
(-0.1)
P 		77
(2.6)
P 		20
B 104
(-0.1)
P 		92.6
(-0.8)
P 		69
(-2.4)
P 		60.4
(-3)
P 		112.6
(0.5)
P 		149.9
(3)
P 		90
C 135.7
(3)
P 		69.7
(-1.3)
P 		62.3
(-1.8)
P 		44.4
(-3)
P 		78.7
(-0.7)
P 		133
(2.8)
P 		91
avr 99.8
(1.1) 		80.2
(-0.6) 		64.3
(-2.1) 		54.5
(-3) 		86.5
(-0.1) 		120
(3) 		66
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171929_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27605
Sequence Type Exemplar sequence
Representative Public ID AV184448 NCBI
Target Description AV184448_rc /REP_DB=TREMBL Accession /GB=AV184448 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk664f9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_058928
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
C18E3.2.1 ENSEMBL cdna:known chromosome:CEL140:I:4210979:4212668:1 gene:C18E3.2 A 
C18E3.2.2 ENSEMBL cdna:known chromosome:CEL140:I:4210981:4212668:1 gene:C18E3.2 A 
SNAP00000003658 ENSEMBL cdna:SNAP chromosome:CEL140:I:4203462:4212514:1 None
NM_058928 NCBI Caenorhabditis elegans C18E3.2 (C18E3.2) mRNA, complete cds. A 
GENEFINDER00000003670 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4210664:4212514:1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_077570 3/11 Cross Hyb Matching Probes A 
NM_073489 4/11 Cross Hyb Matching Probes A 
SNAP00000002776 5/11 Cross Hyb Matching Probes None
GENEFINDER00000002804 4/11 Cross Hyb Matching Probes None
SNAP00000010975 3/11 Cross Hyb Matching Probes None
GENEFINDER00000010981 2/11 Cross Hyb Matching Probes None
K03B8.4 4/11 Cross Hyb Matching Probes A 
C40H5.6 3/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:4212248-4212521(+) 73.18 73.18
Public Domain and Genome References
Gene Title
Ensembl C18E3.2
Entrez Gene 172018 Entrez gene
SwissProt O02101 EMBL-EBI
WormBase CE30249 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250218_AT SWIB complex BAF60b domain-containing protein at
CANINE_2:CFAAFFX.13189.1.S1_AT similar to SWI/SNF-related matrix-associated actin-dependent regulator of chromatin d1 isoform a cfa
DROSOPHILA_2:1634157_AT Brahma associated protein 60kD dm
DROSGENOME1:153648_AT Brahma associated protein 60kD dm
CHICKEN:GGA.9992.1.S1_AT similar to SMARCD1 protein gga
CHICKEN:GGAAFFX.21858.1.S1_AT similar to SMARCD1 protein gga
CHICKEN:GGAAFFX.3872.1.S1_AT similar to SMARCD1 protein gga
HG-U133A_2:203183_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U133A:203183_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U133_PLUS_2:203183_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-FOCUS:203183_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U95AV2:454_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HC-G110:454_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HUGENEFL:U66617_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
U133_X3P:G4507082_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
U133_X3P:HS.79335.1.S2_3P_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U133A_2:209518_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U133_PLUS_2:209518_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U133A:209518_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
HG-U95AV2:37753_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 hs
MU11KSUBA:U66620_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 mm
MG-U74AV2:101405_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 mm
MOE430A:1448913_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 mm
MOUSE430A_2:1448913_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 mm
MOUSE430_2:1448913_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 mm
MOUSE430_2:1427659_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (Smarcd1), mRNA mm
MOUSE430A_2:1427659_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (Smarcd1), mRNA mm
MOE430A:1427659_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (Smarcd1), mRNA mm
MU19KSUBA:TC19174_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (Smarcd1), mRNA mm
RAE230A:1371767_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (predicted) rn
RAT230_2:1371767_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (predicted) rn
RG-U34C:RC_AI172473_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAB52943 Hypothetical protein C18E3.2 [Caenorhabditis elegans] ref|NP_491329.2| C18E3.2 [Caenorhabditis elegans] 0.0
blast CAE66812 Hypothetical protein CBG12176 [Caenorhabditis briggsae] 0.0
blast AAB52941 Hypothetical protein C18E3.3 [Caenorhabditis elegans] ref|NP_491327.1| C18E3.3 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003121 EMBL-EBI SWIB complex, BAF60b 1.4E-33
Pfam IPR003121 EMBL-EBI SWIB complex, BAF60b 1.4E-33
Pfam IPR003121 EMBL-EBI SWIB complex, BAF60b 1.4E-33
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000003670 1 48-67
Sequence
Target Sequence 
>C. ELEGANS:171929_X_AT
caccgaacccgcagaattcatcaaaagctgggtgatgagccagaattcggacctgaagac
tatgaacgagctgagcggggatcttgaggcagaacgattcgctgaatcctacgtgagacc
tgaaacagaggaaggagttcaaaggtacatgttccaaaaggtgaaccagaagcgacacga
gctggagcaaagtcttggtgttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCGAACCCGCAGAATTCATCAAA 260 199 15 Antisense
GGGTGATGAGCCAGAATTCGGACCT 312 497 44 Antisense
GAGCCAGAATTCGGACCTGAAGACT 704 383 51 Antisense
GGACCTGAAGACTATGAACGAGCTG 215 523 63 Antisense
AACGAGCTGAGCGGGGATCTTGAGG 361 145 79 Antisense
GGATCTTGAGGCAGAACGATTCGCT 430 509 93 Antisense
GATTCGCTGAATCCTACGTGAGACC 308 433 110 Antisense
GAATCCTACGTGAGACCTGAAACAG 263 331 118 Antisense
GAGTTCAAAGGTACATGTTCCAAAA 598 397 149 Antisense
GGTGAACCAGAAGCGACACGAGCTG 116 499 174 Antisense
GAGCTGGAGCAAAGTCTTGGTGTTC 384 387 193 Antisense
Sequence Source Affymetrix Proprietary Database