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[181309_s_at]

Description F41E6.9 /REP_DB=WormBase Gene ID /WP=CE10260 /TR=O16458 /GB=AAB65951.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 78      6grp_total > 68      4grp_total > 04      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1203
1 2 3 4 range
A 1386.3
(-2)
P 		1279.4
(-2.6)
P 		1206.9
(-3)
P 		2309.5
(3)
P 		1103
B 1487
(-1.8)
P 		1462.5
(-1.9)
P 		1258.2
(-3)
P 		2409.4
(3)
P 		1151
C 1704.7
(-0.7)
P 		1282.6
(-3)
P 		1341.7
(-2.7)
P 		2368.6
(3)
P 		1086
avr 1526
(-1.6) 		1341.5
(-2.6) 		1268.9
(-3) 		2362.5
(3) 		1094

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1155
1 2 3 4 5 6 range
A 1237
(-3)
P 		1386.8
(-0.8)
P 		1476.5
(0.5)
P 		1465.7
(0.3)
P 		1364.7
(-1.2)
P 		1651.4
(3)
P 		414
B 1645.2
(-0.3)
P 		1185.4
(-3)
P 		1333
(-2.1)
P 		1263.8
(-2.5)
P 		1774.7
(0.4)
P 		2220
(3)
P 		1035
C 1497.5
(-2.1)
P 		1403.7
(-2.6)
P 		1368.7
(-2.8)
P 		1540.2
(-1.8)
P 		1342.5
(-3)
P 		2340.8
(3)
P 		998
avr 1459.9
(-1.9) 		1325.3
(-3) 		1392.7
(-2.5) 		1423.2
(-2.2) 		1494
(-1.6) 		2070.7
(3) 		745
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 287
1 2 3 4 range
A 504.7
(3)
P 		277.7
(-3)
P 		315.5
(-2)
P 		338.1
(-1.4)
P 		227
B 474.2
(1.9)
P 		361.2
(-1.1)
P 		291.5
(-3)
P 		513.4
(3)
P 		222
C 564.3
(3)
P 		368.8
(-3)
P 		467.6
(0)
P 		399.4
(-2.1)
P 		196
avr 514.4
(3) 		335.9
(-3) 		358.2
(-2.3) 		417
(-0.3) 		179

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 600
1 2 3 4 5 6 range
A 228
(-3)
P 		493.2
(3)
P 		321.5
(-0.9)
P 		371.7
(0.3)
P 		411.8
(1.2)
P 		402.1
(0.9)
P 		265
B 572.4
(-0)
P 		394.6
(-2.2)
P 		323.7
(-3)
P 		334.7
(-2.9)
P 		721
(1.7)
P 		827.8
(3)
P 		504
C 555.1
(0.1)
P 		428.3
(-1.5)
P 		348.3
(-2.5)
P 		309.7
(-3)
P 		434.4
(-1.4)
P 		783.6
(3)
P 		474
avr 451.8
(-0.9) 		438.7
(-1.1) 		331.2
(-3) 		338.7
(-2.9) 		522.4
(0.4) 		671.2
(3) 		340
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 181309_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12424
Sequence Type Exemplar sequence
Representative Public ID F41E6.9 NCBI
Target Description F41E6.9 /REP_DB=WormBase Gene ID /WP=CE10260 /TR=O16458 /GB=AAB65951.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072818(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072818 NCBI Caenorhabditis elegans F41E6.9 (F41E6.9) mRNA, complete cds. 11/11 None
SNAP00000009424 ENSEMBL cdna:SNAP chromosome:CEL140:V:8607844:8608713:-1 11/11 None
GENEFINDER00000009443 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8607844:8608713:-1 11/11 None
F41E6.9 ENSEMBL cdna:known chromosome:CEL140:V:8606248:8608713:-1 gene:F41E6.9 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
chrV:8607844-8608714(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F41E6.9
Entrez Gene 179242 Entrez gene
SwissProt O16458 EMBL-EBI
WormBase CE10260 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258915_AT SNF7 family protein at
DROSOPHILA_2:1638501_AT dm
DROSGENOME1:148965_AT dm
CHICKEN:GGA.5470.1.S1_AT chromatin modifying protein 5 gga
HU35KSUBA:RC_AA470080_AT chromatin modifying protein 5 hs
HG-U133A:219356_S_AT chromatin modifying protein 5 hs
HG-U133_PLUS_2:219356_S_AT chromatin modifying protein 5 hs
HG-U133A_2:219356_S_AT chromatin modifying protein 5 hs
HG-U133A:218085_AT chromatin modifying protein 5 hs
HG-U133_PLUS_2:218085_AT chromatin modifying protein 5 hs
HG-U133A_2:218085_AT chromatin modifying protein 5 hs
U133_X3P:G7705488_3P_X_AT chromatin modifying protein 5 hs
U133_X3P:G7705488_3P_S_AT chromatin modifying protein 5 hs
U133_X3P:G7705488_3P_AT chromatin modifying protein 5 hs
U133_X3P:G7706273_3P_AT chromatin modifying protein 5 hs
U133_X3P:219356_3P_S_AT chromatin modifying protein 5 hs
HG-U95B:44853_S_AT chromatin modifying protein 5 hs
HG-U95C:64109_AT chromatin modifying protein 5 hs
MOUSE430A_2:1432270_A_AT chromatin modifying protein 5 mm
MOUSE430_2:1432270_A_AT chromatin modifying protein 5 mm
MOE430A:1432270_A_AT chromatin modifying protein 5 mm
MU11KSUBA:AA163872_G_AT chromatin modifying protein 5 mm
MU11KSUBA:AA163872_AT chromatin modifying protein 5 mm
MG-U74AV2:103076_AT chromatin modifying protein 5 mm
MG-U74BV2:165022_F_AT chromatin modifying protein 5 mm
MOE430B:1458572_AT chromatin modifying protein 5 mm
MOUSE430_2:1458572_AT chromatin modifying protein 5 mm
MU19KSUBB:TC34488_AT Chromatin modifying protein 5, mRNA (cDNA clone MGC:6559 IMAGE:2811290) mm
RG-U34B:RC_AA998435_AT similar to RIKEN cDNA 2210412K09 (predicted) rn
RAE230A:1367512_AT similar to RIKEN cDNA 2210412K09 (predicted) rn
RAE230B:1367512_AT similar to RIKEN cDNA 2210412K09 (predicted) rn
RAT230_2:1367512_AT similar to RIKEN cDNA 2210412K09 (predicted) rn
RG-U34B:RC_AA963175_AT Similar to RIKEN cDNA 2210412K09 (predicted) rn
YEAST_2:1769575_AT Cytoplasmic and vacuolar membrane protein involved in late endosome to vacuole transport; required for normal filament maturation during pseudohyphal growth; may function in targeting specific cargo proteins for degradation Sc
Protein Similarities
Method ID Description E-Value
blast AAB65951 Hypothetical protein F41E6.9 [Caenorhabditis elegans] ref|NP_505219.1| F41E6.9 [Caenorhabditis elegans] 1.0E-107
blast CAE58355 Hypothetical protein CBG01476 [Caenorhabditis briggsae] 1.0E-103
blast NP_001016748 hypothetical protein LOC549502 [Xenopus tropicalis] ref|NP_001015720.1| MGC107865 protein [Xenopus tropicalis] gb|AAH89652.1| MGC107865 protein [Xenopus tropicalis] sp|Q5FW29|CHMP5_XENTR Charged multivesicular body protein 5 (Chromatin modifying protein 5) 1.0E-63
Protein Domains
Database ID Description E-Value
Pfam IPR005024 EMBL-EBI Snf7 1.2E-76
Sequence
Target Sequence 
>C. ELEGANS:181309_S_AT
aattcagaagctcgatcaggatcttatgaaacttcgtgatcaaatgtcaaaaatgcgtga
aggtccaagcaagaacttgatcaagcaaaaagcattgcgcgtactgaaacaaaaacgaat
gtacgagaaccagaaaggtcaattggatcaacaagccttcaacatggatcagagcaattt
cgctatccaaggcatgaaagataaccaagttaccgttgctgcaatgaaggatggattgaa
gacaatgcaaaaggaatacaagaaaatgaacattgatcaaatcgaagatcttcaagacca
aatggaagatatgttggatatgaacaatgaaattcaagaagcaatgagcaggcagtacga
tactcctga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTCAGAAGCTCGATCAGGATCTT 534 175 111 Antisense
TCAGGATCTTATGAAACTTCGTGAT 683 619 126 Antisense
TGCGTGAAGGTCCAAGCAAGAACTT 461 549 164 Antisense
AAAAAGCATTGCGCGTACTGAAACA 541 129 197 Antisense
GGTCAATTGGATCAACAAGCCTTCA 619 503 247 Antisense
GGATCAACAAGCCTTCAACATGGAT 58 511 255 Antisense
CAACATGGATCAGAGCAATTTCGCT 469 189 270 Antisense
GCAATTTCGCTATCCAAGGCATGAA 420 323 284 Antisense
GATAACCAAGTTACCGTTGCTGCAA 248 423 310 Antisense
ACCGTTGCTGCAATGAAGGATGGAT 538 89 322 Antisense
TGAGCAGGCAGTACGATACTCCTGA 232 569 455 Antisense
Sequence Source Affymetrix Proprietary Database