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[179451_at]

Description F28C1.1 /REP_DB=WormBase Gene ID /WP=CE20729 /TR=Q19854 /GB=CAA99843.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 46      6grp_high1_10_10 > 55      4grp_high_8_8 > 08      6grp_highest_nonorm > 90      6grp_total > 50      4grp_total > 31      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 161.3
(3)
P 		64.7
(-2.8)
P 		62
(-3)
A 		115.7
(0.2)
P 		99
B 170.9
(3)
P 		84.6
(-2.5)
P 		77.2
(-3)
A 		103
(-1.3)
P 		94
C 187.8
(3)
P 		73.3
(-3)
P 		105.3
(-1.3)
P 		136.8
(0.3)
P 		115
avr 173.3
(3) 		74.2
(-3) 		81.5
(-2.6) 		118.5
(-0.3) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 89
(-0.8)
P 		106.1
(0.4)
P 		142.7
(3)
P 		125.9
(1.8)
P 		56.9
(-3)
P 		109.4
(0.7)
P 		86
B 124
(0.9)
P 		83.3
(-3)
P 		129.9
(1.4)
P 		146.4
(3)
P 		102.6
(-1.2)
P 		106.6
(-0.8)
P 		63
C 141.2
(3)
P 		129.8
(2.2)
P 		120.1
(1.5)
P 		116.4
(1.2)
P 		59.5
(-3)
P 		130.4
(2.2)
P 		82
avr 118.1
(1.7) 		106.4
(0.5) 		130.9
(3) 		129.6
(2.9) 		73
(-3) 		115.5
(1.4) 		58
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 58.7
(3)
P 		14
(-3)
P 		16.2
(-2.7)
A 		16.9
(-2.6)
P 		45
B 54.5
(3)
P 		20.9
(-2.5)
P 		17.9
(-3)
A 		21.9
(-2.3)
P 		37
C 62.2
(3)
P 		21.1
(-3)
P 		36.7
(-0.7)
P 		23.1
(-2.7)
P 		41
avr 58.5
(3) 		18.7
(-3) 		23.6
(-2.3) 		20.6
(-2.7) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 16.4
(-3)
P 		37.7
(3)
P 		31.1
(1.1)
P 		31.9
(1.4)
P 		17.2
(-2.8)
P 		26.6
(-0.1)
P 		21
B 43.2
(3)
P 		27.7
(-3)
P 		31.5
(-1.5)
P 		38.8
(1.3)
P 		41.7
(2.4)
P 		39.8
(1.7)
P 		16
C 52.3
(3)
P 		39.6
(0.7)
P 		30.6
(-0.9)
P 		23.4
(-2.3)
P 		19.3
(-3)
P 		43.7
(1.4)
P 		33
avr 37.3
(3) 		35
(1.8) 		31.1
(-0.3) 		31.4
(-0.2) 		26.1
(-3) 		36.7
(2.7) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179451_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13990
Sequence Type Exemplar sequence
Representative Public ID F28C1.1 NCBI
Target Description F28C1.1 /REP_DB=WormBase Gene ID /WP=CE20729 /TR=Q19854 /GB=CAA99843.1 /SUBMIT=HINXTON /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_073723(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073723 NCBI Caenorhabditis elegans F28C1.1 (F28C1.1) mRNA, complete cds. 11/11 None
SNAP00000044353 ENSEMBL cdna:SNAP chromosome:CEL140:V:12453398:12455802:1 11/11 None
GENEFINDER00000044357 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12453398:12455802:1 11/11 None
F28C1.1 ENSEMBL cdna:known chromosome:CEL140:V:12453395:12455910:1 gene:F28C1.1 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
chrV:12453397-12455802(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F28C1.1
Entrez Gene 179705 Entrez gene
SwissProt Q19854 EMBL-EBI
WormBase CE20729 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13973_AT expressed protein at
ATH1-121501:246285_AT expressed protein at
CANINE:1592233_AT similar to Splicing factor, arginine/serine-rich 16 (Suppressor of white-apricot homolog 2) cfa
CANINE_2:CFA.8220.1.A1_AT similar to Splicing factor, arginine/serine-rich 16 (Suppressor of white-apricot homolog 2) cfa
CANINE_2:CFAAFFX.7835.1.S1_AT similar to Splicing factor, arginine/serine-rich 16 (Suppressor of white-apricot homolog 2) cfa
CANINE_2:CFAAFFX.7835.1.S1_S_AT similar to Splicing factor, arginine/serine-rich 16 (Suppressor of white-apricot homolog 2) cfa
DROSOPHILA_2:1639626_AT dm
DROSGENOME1:141667_AT dm
HG-U133_PLUS_2:204978_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
HG-U133A:204978_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
HG-FOCUS:204978_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
HG-U133A_2:204978_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
HG-U95AV2:36005_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
HU35KSUBC:RC_AA456852_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
U133_X3P:G5902129_3P_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) hs
MOE430A:1428961_A_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) mm
MOUSE430A_2:1428961_A_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) mm
MOUSE430_2:1428961_A_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) mm
MG-U74AV2:103822_AT splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila) mm
RG-U34B:RC_AI029163_S_AT similar to SWAP2 rn
RG-U34C:RC_AI103054_AT similar to SWAP2 rn
RAE230A:1376054_AT similar to SWAP2 rn
RAT230_2:1376054_AT similar to SWAP2 rn
Protein Similarities
Method ID Description E-Value
blast CAA99843 Hypothetical protein F28C1.1 [Caenorhabditis elegans] ref|NP_506124.1| F28C1.1 [Caenorhabditis elegans] 0.0
blast CAA99843 Hypothetical protein F28C1.1 [Caenorhabditis elegans] ref|NP_506124.1| F28C1.1 [Caenorhabditis elegans] 1.0E-178
blast CAE75493 Hypothetical protein CBG23497 [Caenorhabditis briggsae] 1.0E-150
blast CAE75493 Hypothetical protein CBG23497 [Caenorhabditis briggsae] 1.0E-145
blast XP_533642 PREDICTED: similar to Splicing factor, arginine/serine-rich 16 (Suppressor of white-apricot homolog 2) isoform 1 [Canis familiaris] 5.0E-33
Sequence
Target Sequence 
>C. ELEGANS:179451_AT
cgtagtcggtccagggatcgtagaaggcacagaagtcgaagcacgagtagaagacgccag
cgttcgaaagatcggagacgagacagatctagagacagatccagagatgaaagaaatgag
aaacgaagaacatcaaagaacgtggtacgacaagatgatgttgtctcttgtgttgtttca
gaagagaaacctccagtgaaagttgacgagcccagagagagtagcgctgaagacagtgat
tccgatcatgtaaaaatgttggaaataaggtcgagtatgtcggactcagaaaaggaaaaa
gctgaaattgaaaaccgaaaacggcgcgtaaaattgacaaagaaattgattaaagagaaa
cgtggacagacatcaaatgatcgtagcagtgatgaagatgatggtgaacaacagtggaaa
acggagcaagcgagacgagtaaaaatgcagatgagtcaagcgttaaagaaaacaagacaa
gaattggcgaaagaagaagaagatcgcaagaaagaagctgaagtcgcccaacgagttcgc
gatgagcttcggtacatagaaacccaagaacggcgagagcgagaacgtgccaaacgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTAGTCGGTCCAGGGATCGTAGAA 306 245 1402 Antisense
GAAGCACGAGTAGAAGACGCCAGCG 477 341 1439 Antisense
AGACGCCAGCGTTCGAAAGATCGGA 407 69 1453 Antisense
GATGTTGTCTCTTGTGTTGTTTCAG 242 411 1558 Antisense
TCCAGTGAAAGTTGACGAGCCCAGA 613 587 1593 Antisense
GACGAGCCCAGAGAGAGTAGCGCTG 423 379 1606 Antisense
AGCGCTGAAGACAGTGATTCCGATC 351 81 1624 Antisense
GAAGCTGAAGTCGCCCAACGAGTTC 566 343 1915 Antisense
GAGTTCGCGATGAGCTTCGGTACAT 32 399 1934 Antisense
GAAACCCAAGAACGGCGAGAGCGAG 659 355 1960 Antisense
GCGAGAGCGAGAACGTGCCAAACGG 635 287 1974 Antisense
Sequence Source Affymetrix Proprietary Database