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[189012_s_at] SNF2alpha like

Description F01G4.1 /REP_DB=WormBase Gene ID /WP=CE05553 /TR=Q19106 /GB=CAA92978.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=SNF2alpha like
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 47      4grp_highest_8_8 > 52      4grp_high_8_8 > 25      6grp_highest_nonorm > 86      6grp_total > 37      4grp_total > 39      6grp_highest_sub > Cu      6grp_cgc > 16      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1042
1 2 3 4 range
A 1663.7
(3)
P 		940.7
(-1.7)
P 		743.5
(-3)
P 		1222.6
(0.1)
P 		920
B 1708.5
(3)
P 		900.6
(-2.6)
P 		836.3
(-3)
P 		1063.4
(-1.4)
P 		872
C 1785.9
(3)
P 		850.8
(-2.9)
P 		827.8
(-3)
P 		1068
(-1.5)
P 		958
avr 1719.4
(3) 		897.4
(-2.4) 		802.5
(-3) 		1118
(-0.9) 		917

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 781
1 2 3 4 5 6 range
A 1067.7
(0.5)
P 		1367
(3)
P 		643.2
(-3)
P 		854.3
(-1.3)
P 		698.6
(-2.5)
P 		1327.9
(2.7)
P 		724
B 1204.2
(3)
P 		978.9
(0.7)
P 		691.2
(-2.3)
P 		797.5
(-1.2)
P 		619.3
(-3)
P 		1056.4
(1.5)
P 		585
C 1400.1
(3)
P 		944.6
(-1.2)
P 		1128
(0.5)
P 		750.2
(-3)
P 		807.6
(-2.5)
P 		1107
(0.3)
P 		650
avr 1224
(3) 		1096.8
(1.5) 		820.8
(-1.7) 		800.7
(-1.9) 		708.5
(-3) 		1163.8
(2.3) 		516
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 427
1 2 3 4 range
A 605.7
(3)
P 		204.2
(-2.6)
P 		194.4
(-2.8)
P 		179
(-3)
P 		427
B 544.8
(3)
P 		222.4
(-2.5)
P 		193.8
(-3)
P 		226.6
(-2.4)
P 		351
C 591.2
(3)
P 		244.6
(-2.1)
P 		288.5
(-1.4)
P 		180.1
(-3)
P 		411
avr 580.6
(3) 		223.7
(-2.6) 		225.6
(-2.5) 		195.2
(-3) 		385

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 379
1 2 3 4 5 6 range
A 196.8
(-2)
P 		486.2
(3)
P 		140.1
(-3)
P 		216.7
(-1.7)
P 		210.8
(-1.8)
P 		323.3
(0.2)
P 		346
B 419
(3)
P 		325.8
(0.8)
P 		167.8
(-3)
P 		211.2
(-2)
P 		251.6
(-1)
P 		393.9
(2.4)
P 		251
C 518.9
(3)
P 		288.2
(-0.8)
P 		287.1
(-0.8)
P 		150.9
(-3)
P 		261.3
(-1.2)
P 		370.6
(0.6)
P 		368
avr 378.2
(3) 		366.7
(2.6) 		198.3
(-2.8) 		192.9
(-3) 		241.2
(-1.4) 		362.6
(2.5) 		185
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189012_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9573
Sequence Type Exemplar sequence
Representative Public ID F01G4.1 NCBI
Target Description F01G4.1 /REP_DB=WormBase Gene ID /WP=CE05553 /TR=Q19106 /GB=CAA92978.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=SNF2alpha like
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_069681(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069681 NCBI Caenorhabditis elegans Phasmid Socket Absent family member (psa-4) (psa-4) mRNA, complete cds. 11/11 A 
SNAP00000024044 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11127816:11130796:1 11/11 None
GENEFINDER00000024054 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11127816:11130796:1 11/11 None
F01G4.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:11125994:11131140:1 gene:F01G4.1 11/11 None
F01G4.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:11125996:11131140:1 gene:F01G4.1 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
chrIV:11126051-11130802(+) 100.0 100.0
Public Domain and Genome References
Gene Title SNF2alpha like
Gene Symbol psa-4
Ensembl F01G4.1
Entrez Gene 178015 Entrez gene
SwissProt Q19106 EMBL-EBI
WormBase CE05553 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246095_AT homeotic gene regulator, putative at
CANINE:1592404_AT similar to SWI/SNF-related matrix-associated actin-dependent regulator of chromatin a4 cfa
CANINE_2:CFA.1357.1.A1_AT similar to SWI/SNF-related matrix-associated actin-dependent regulator of chromatin a4 cfa
CANINE_2:CFAAFFX.26932.1.S1_S_AT similar to SWI/SNF-related matrix-associated actin-dependent regulator of chromatin a4 cfa
DROSOPHILA_2:1636831_S_AT brahma dm
DROSGENOME1:142840_S_AT brahma dm
HG-U133A:208793_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:208793_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:208793_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:208794_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:208794_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-FOCUS:208794_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:208794_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:214728_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:214728_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:214728_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:215714_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:215714_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:215714_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:213720_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:213720_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:213720_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBA:HUM_ALU_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBB:HUM_ALU_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBC:HUM_ALU_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBD:HUM_ALU_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HUGENEFL:HUM_ALU_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HC-G110:HUM_ALU_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBD:RC_AA405496_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBD:RC_AA598648_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HU35KSUBD:RC_AA504818_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HUGENEFL:U29175_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HUGENEFL:D26156_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:214360_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:214360_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:214360_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.5.S1_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.4.S1_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.3.S1_3P_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.3.S1_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.1.S1_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.0.S1_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:1569073_3P_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:1569073_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:212520_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:212520_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:212520_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U95AV2:32579_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U95C:57257_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U95E:88069_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:213719_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:213719_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:213719_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:217656_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A_2:217656_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133A:217656_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133_PLUS_2:243655_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U133B:243655_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
HG-U95E:69570_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:214360_3P_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.199828.0.A1_3P_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.199828.0.A1_3P_X_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.244737.0.A1_3P_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
U133_X3P:HS.78202.2.S1_3P_A_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 hs
MOE430A:1426804_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MOUSE430A_2:1426804_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MOUSE430_2:1426804_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MOE430A:1426805_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MOUSE430A_2:1426805_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MOUSE430_2:1426805_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MU11KSUBB:MSA.14584.0_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MU11KSUBB:MSA.30464.0_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MU11KSUBB:S68108_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MU11KSUBB:MSA.9908.0_F_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MU11KSUBB:MSA.18914.0_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MG-U74AV2:98463_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MG-U74CV2:169429_F_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MG-U74AV2:92687_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MU19KSUBB:TC26942_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 mm
MG-U74CV2:165837_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, mRNA (cDNA clone IMAGE:5025538) mm
MU19KSUBC:TC36206_S_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, mRNA (cDNA clone IMAGE:5025538) mm
RG-U34A:X99723CDS_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RG-U34B:RC_AA957591_G_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RG-U34B:RC_AA957591_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RG-U34C:RC_AI144965_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RAE230A:1385011_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RAT230_2:1385011_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RAE230A:1375469_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RAT230_2:1375469_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RG-U34B:RC_AI011809_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RAE230A:1373565_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
RAT230_2:1373565_AT SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 rn
YEAST_2:1769368_AT Catalytic subunit of the 11-subunit SWI/SNF chromatin remodeling complex involved in transcriptional regulation; contains DNA-stimulated ATPase activity; functions interdependently in transcriptional activation with Snf5p and Snf6p Sc
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92978 Hypothetical protein F01G4.1 [Caenorhabditis elegans] emb|CAA92768.1| Hypothetical protein F01G4.1 [Caenorhabditis elegans] ref|NP_502082.1| Phasmid Socket Absent family member (psa-4) [Caenorhabditis elegans] gb|AAG16655.1| SWI2/SNF2-like protein; PSA-4 [Caenorhabditis elegans] 0.0
blast CAE63752 Hypothetical protein CBG08287 [Caenorhabditis briggsae] 0.0
blast CAE62008 Hypothetical protein CBG06016 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000330 EMBL-EBI SNF2 related domain 1.0E-126
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.8E-27
Pfam IPR001487 EMBL-EBI Bromodomain 1.6E-38
Pfam IPR000330 EMBL-EBI SNF2 related domain 1.0E-126
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.8E-27
Pfam IPR001487 EMBL-EBI Bromodomain 1.6E-38
Sequence
Target Sequence 
>C. ELEGANS:189012_S_AT
ttatgaatccaccgaagccagtagaagaaccagtcaagaagaaagaaccttcaaccccat
caacttcatcttctcgtccctcaaccagtggcactccaagtgtgtcagatcttcagcgga
cacaacaggcaactgctcagcaaatgttaatgcttatgacacatatgcaatcacttccac
ccgcacaggctcagcagtttcaacaggcattgatgacacagaccggtggaaatcaagccc
taatgcttcaatatatgcagtcggctatgctagctcaacgtgcacaagcttcaactaaag
taacccccaaaaaggacgagaaaaaagaaacttcgtcttctgtaaagaccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATGAATCCACCGAAGCCAGTAGA 167 681 3872 Antisense
GGCACTCCAAGTGTGTCAGATCTTC 400 535 3961 Antisense
TCAGATCTTCAGCGGACACAACAGG 348 623 3976 Antisense
GACACAACAGGCAACTGCTCAGCAA 117 367 3990 Antisense
TGACACATATGCAATCACTTCCACC 688 571 4028 Antisense
CGCACAGGCTCAGCAGTTTCAACAG 65 255 4053 Antisense
CAGGCATTGATGACACAGACCGGTG 529 203 4075 Antisense
AGACCGGTGGAAATCAAGCCCTAAT 218 57 4091 Antisense
GCAGTCGGCTATGCTAGCTCAACGT 74 311 4128 Antisense
GCTCAACGTGCACAAGCTTCAACTA 555 301 4144 Antisense
GAAACTTCGTCTTCTGTAAAGACCG 511 353 4198 Antisense
Sequence Source Affymetrix Proprietary Database