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[175042_at]

Description CEK089FXR_rc /REP_DB=TREMBL Accession /GB=D72086 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk89f10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 68      4grp_highest_8_8 > 19      4grp_high_8_8 > 63      6grp_highest_nonorm > 91      6grp_total > 69      4grp_total > 56      6grp_highest_sub > Da      6grp_cgc > 28      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 148
1 2 3 4 range
A 188.6
(-2.7)
P 		213.7
(-1.7)
P 		328
(3)
P 		182.3
(-3)
P 		146
B 214.8
(-3)
P 		228
(-0.6)
P 		247.3
(2.9)
P 		247.6
(3)
P 		33
C 180.3
(-3)
P 		225.5
(2.2)
P 		232.6
(3)
P 		193.9
(-1.4)
P 		52
avr 194.6
(-3) 		222.4
(-0.8) 		269.3
(3) 		207.9
(-1.9) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 203.5
(-1.2)
P 		195.9
(-1.8)
P 		199.3
(-1.5)
P 		178.9
(-3)
P 		250.5
(2.2)
P 		262.2
(3)
P 		83
B 213.9
(-1)
P 		205.4
(-1.4)
P 		226.2
(-0.4)
P 		168.1
(-3)
P 		208.8
(-1.2)
P 		304.7
(3)
P 		137
C 265.9
(1)
P 		216
(-1.6)
P 		223.6
(-1.2)
P 		190.6
(-3)
P 		195.6
(-2.7)
P 		302.9
(3)
P 		112
avr 227.8
(-0.4) 		205.8
(-1.6) 		216.4
(-1) 		179.2
(-3) 		218.3
(-0.9) 		289.9
(3) 		111
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 68.7
(1.3)
P 		46.4
(-1)
P 		85.7
(3)
P 		26.7
(-3)
P 		59
B 68.5
(3)
P 		56.3
(-1.7)
P 		57.3
(-1.3)
P 		52.8
(-3)
P 		16
C 59.7
(0.3)
P 		64.8
(1)
P 		81.1
(3)
P 		32.7
(-3)
P 		48
avr 65.6
(1.5) 		55.8
(-0) 		74.7
(3) 		37.4
(-3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 37.5
(-3)
P 		69.7
(2.1)
P 		43.4
(-2.1)
P 		45.4
(-1.8)
P 		75.6
(3)
P 		63.8
(1.1)
P 		38
B 74.4
(-0.4)
P 		68.4
(-0.9)
P 		54.9
(-2.1)
P 		44.5
(-3)
P 		84.9
(0.5)
P 		113.6
(3)
P 		69
C 98.5
(2.7)
P 		65.9
(-0.4)
P 		56.9
(-1.2)
P 		38.3
(-3)
P 		63.3
(-0.6)
P 		101.4
(3)
P 		63
avr 70.1
(0.3) 		68
(0) 		51.7
(-1.9) 		42.7
(-3) 		74.6
(0.8) 		92.9
(3) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175042_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20696
Sequence Type Exemplar sequence
Representative Public ID CEK089FXR NCBI
Target Description CEK089FXR_rc /REP_DB=TREMBL Accession /GB=D72086 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk89f10 : 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_062362(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062362 NCBI Caenorhabditis elegans H20J04.8 (H20J04.8) mRNA, complete cds. 11/11 None
SNAP00000017486 ENSEMBL cdna:SNAP chromosome:CEL140:II:4324360:4325860:1 9/11 None
GENEFINDER00000017493 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4323256:4325860:1 9/11 None
H20J04.8.1 ENSEMBL cdna:known chromosome:CEL140:II:4324352:4326082:1 gene:H20J04.8 11/11 None
H20J04.8.2 ENSEMBL cdna:known chromosome:CEL140:II:4324354:4326082:1 gene:H20J04.8 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
chrII:4325666-4326071(+) 88.89 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sap-1
Ensembl H20J04.8
Entrez Gene 173767 Entrez gene
SwissProt Q9BLB6 EMBL-EBI
WormBase CE20974 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264678_AT U2 small nuclear ribonucleoprotein A, putative at
ATGENOME1:20664_S_AT U2 small nuclear ribonucleoprotein A, putative at
CANINE_2:CFAAFFX.16521.1.S1_AT similar to U2 small nuclear ribonucleoprotein A (U2 snRNP-A) cfa
CANINE_2:CFAAFFX.20635.1.S1_S_AT similar to U2 small nuclear ribonucleoprotein A (U2 snRNP-A) cfa
DROSOPHILA_2:1631575_AT dm
DROSGENOME1:146760_AT dm
CHICKEN:GGA.7571.1.S1_AT small nuclear ribonucleoprotein polypeptide A' gga
CHICKEN:GGAAFFX.12146.1.S1_AT small nuclear ribonucleoprotein polypeptide A' gga
HG-U133_PLUS_2:206055_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133A:206055_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-FOCUS:206055_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133A_2:206055_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133_PLUS_2:216977_X_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133A_2:216977_X_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133A:216977_X_AT small nuclear ribonucleoprotein polypeptide A' hs
HUGENEFL:X13482_AT small nuclear ribonucleoprotein polypeptide A' hs
U133_X3P:G4507120_3P_A_AT small nuclear ribonucleoprotein polypeptide A' hs
U133_X3P:HS.80506.2.S1_3P_A_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133A_2:215722_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133_PLUS_2:215722_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133A:215722_S_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U95AV2:37585_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U95D:74683_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U95D:76753_AT small nuclear ribonucleoprotein polypeptide A' hs
HG-U133_PLUS_2:242146_AT Small nuclear ribonucleoprotein polypeptide A' hs
HG-U133B:242146_AT Small nuclear ribonucleoprotein polypeptide A' hs
U133_X3P:HS.125259.0.A1_3P_AT Small nuclear ribonucleoprotein polypeptide A' hs
MG-U74AV2:101506_AT small nuclear ribonucleoprotein polypeptide A' mm
MOE430A:1417353_X_AT small nuclear ribonucleoprotein polypeptide A' mm
MOUSE430A_2:1417353_X_AT small nuclear ribonucleoprotein polypeptide A' mm
MOUSE430_2:1417353_X_AT small nuclear ribonucleoprotein polypeptide A' mm
MOE430A:1417352_S_AT small nuclear ribonucleoprotein polypeptide A' mm
MOUSE430A_2:1417352_S_AT small nuclear ribonucleoprotein polypeptide A' mm
MOUSE430_2:1417352_S_AT small nuclear ribonucleoprotein polypeptide A' mm
MOE430A:1417351_A_AT small nuclear ribonucleoprotein polypeptide A' mm
MOUSE430A_2:1417351_A_AT small nuclear ribonucleoprotein polypeptide A' mm
MOUSE430_2:1417351_A_AT small nuclear ribonucleoprotein polypeptide A' mm
MU11KSUBA:AA144734_AT Small nuclear ribonucleoprotein polypeptide A', mRNA (cDNA clone MGC:25531 IMAGE:3588138) mm
MU19KSUBB:TC29267_AT Small nuclear ribonucleoprotein polypeptide A', mRNA (cDNA clone MGC:25531 IMAGE:3588138) mm
RAE230A:1389446_AT small nuclear ribonucleoprotein polypeptide A' (predicted) rn
RAT230_2:1389446_AT small nuclear ribonucleoprotein polypeptide A' (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAK31542 Spliceosome-associated protein protein 1 [Caenorhabditis elegans] ref|NP_494763.1| H20J04.8 [Caenorhabditis elegans] sp|Q9BLB6|RU2A_CAEEL Probable U2 small nuclear ribonucleoprotein A' (U2 snRNP-A') 1.0E-133
blast CAE60126 Hypothetical protein CBG03669 [Caenorhabditis briggsae] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.045
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.05
Pfam IPR008496 EMBL-EBI Protein of unknown function DUF778 4.9E-115
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.045
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.05
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000017493 1 17-39
Sequence
Target Sequence 
>C. ELEGANS:175042_AT
aatagttcgggtggaggtgctcggcttactgatgaagatcgggagaagatcaaggaagcg
atcaagaatgccaagtcactcagtgaagtcaactatcttcagtcgattctggcatcggga
aaggttccggaaaagggatggaatcgtcagatggatcagaatggtgccgatggggaagcg
atggagtcttgaaaaatcttgaaaattgcagaatgtgctgctaaaatttatttatttatt
ttatttgatttttttaatgttaaaatgatactccttgttttatttatattctcatttttt
tccaattttttcccagtctgtcttccctttttttgtaatttttatataccataaaacaat
atttcccctat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATAGTTCGGGTGGAGGTGCTCGGC 392 159 14 Antisense
GGTGCTCGGCTTACTGATGAAGATC 682 499 29 Antisense
GCGATCAAGAATGCCAAGTCACTCA 64 291 71 Antisense
AGTCACTCAGTGAAGTCAACTATCT 220 61 87 Antisense
AGTCAACTATCTTCAGTCGATTCTG 351 61 100 Antisense
TCTTCAGTCGATTCTGGCATCGGGA 701 615 109 Antisense
TCTGGCATCGGGAAAGGTTCCGGAA 9 609 121 Antisense
GATGGATCAGAATGGTGCCGATGGG 423 407 163 Antisense
GGTGCCGATGGGGAAGCGATGGAGT 685 501 176 Antisense
GATACTCCTTGTTTTATTTATATTC 12 425 280 Antisense
TACCATAAAACAATATTTCCCCTAT 28 651 360 Antisense
Sequence Source Affymetrix Proprietary Database