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[187907_s_at]

Description F28D9.1 /REP_DB=WormBase Gene ID /WP=CE23686 /GEN=rsr-1 /TR=O62185 /GB=CAB04214.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 40      4grp_total > 62      6grp_cgc > 82      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 118.5
(3)
A 		90.8
(0.3)
A 		77.4
(-1)
A 		56.9
(-3)
A 		62
B 133.4
(3)
A 		68.5
(-3)
A 		92.6
(-0.8)
A 		98.4
(-0.2)
A 		65
C 57.5
(-0.1)
A 		93.4
(3)
A 		87.8
(2.5)
A 		24.5
(-3)
A 		69
avr 103.1
(3) 		84.2
(0.4) 		85.9
(0.6) 		59.9
(-3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 110
1 2 3 4 5 6 range
A 15.7
(-2.9)
A 		76.5
(1.5)
A 		19
(-2.6)
A 		97.2
(3)
A 		14.1
(-3)
A 		64.4
(0.6)
A 		83
B 44.1
(-1.1)
A 		52.9
(-0.5)
A 		105.5
(3)
A 		16.4
(-3)
A 		27.2
(-2.3)
A 		18.8
(-2.8)
A 		89
C 123.9
(3)
A 		63.2
(-0.8)
A 		110.3
(2.1)
A 		93.6
(1.1)
A 		57.8
(-1.1)
A 		28.3
(-3)
A 		96
avr 61.2
(0.7) 		64.2
(1.1) 		78.3
(3) 		69.1
(1.8) 		33
(-3) 		37.2
(-2.4) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 43.2
(3)
A 		19.7
(-1)
A 		20.2
(-1)
A 		8.3
(-3)
A 		35
B 42.5
(3)
A 		16.9
(-3)
A 		21.5
(-1.9)
A 		21
(-2)
A 		26
C 19
(0.4)
A 		26.9
(2.2)
A 		30.6
(3)
A 		4.1
(-3)
A 		27
avr 34.9
(3) 		21.2
(-0.5) 		24.1
(0.3) 		11.1
(-3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 2.9
(-3)
A 		27.2
(3)
A 		4.1
(-2.7)
A 		24.7
(2.4)
A 		4.2
(-2.7)
A 		15.7
(0.2)
A 		24
B 15.4
(0.1)
A 		17.6
(0.7)
A 		25.6
(3)
A 		4.3
(-3)
A 		11.1
(-1.1)
A 		7
(-2.2)
A 		21
C 45.9
(3)
A 		19.3
(-1.4)
A 		28.1
(0.1)
A 		18.8
(-1.5)
A 		18.7
(-1.5)
A 		9.5
(-3)
A 		36
avr 21.4
(3) 		21.4
(3) 		19.3
(1.8) 		15.9
(-0.1) 		11.3
(-2.7) 		10.7
(-3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187907_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1398
Sequence Type Exemplar sequence
Representative Public ID F28D9.1 NCBI
Target Description F28D9.1 /REP_DB=WormBase Gene ID /WP=CE23686 /GEN=rsr-1 /TR=O62185 /GB=CAB04214.2 /SUBMIT=HINXTON /CHR=1 /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_060474(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060474 NCBI Caenorhabditis elegans SR protein related family member (rsr-1) (rsr-1) mRNA, complete cds. 11/11 None
SNAP00000044706 ENSEMBL cdna:SNAP chromosome:CEL140:I:11183152:11202749:-1 11/11 None
GENEFINDER00000044709 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11183152:11190186:-1 11/11 None
F28D9.1 ENSEMBL cdna:known chromosome:CEL140:I:11185967:11190187:-1 gene:F28D9.1 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
chrI:11186119-11190117(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rsr-1
Ensembl F28D9.1
Entrez Gene 173013 Entrez gene
SwissProt O62185 EMBL-EBI
WormBase CE30346 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:12016_AT splicing factor PWI domain-containing protein at
ATH1-121501:266283_AT splicing factor PWI domain-containing protein at
CANINE:1595807_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE:1591331_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE:1588316_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE_2:CFA.2041.1.A1_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE_2:CFA.6942.1.A1_S_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE_2:CFA.7921.1.A1_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE_2:CFAAFFX.20032.1.S1_AT similar to serine/arginine repetitive matrix 1 cfa
CANINE_2:CFAAFFX.7327.1.S1_S_AT similar to serine/arginine repetitive matrix 1 cfa
DROSOPHILA_2:1632470_AT dm
DROSGENOME1:148693_AT dm
CHICKEN:GGA.4399.1.S1_S_AT serine/arginine repetitive matrix 1 gga
HG-U133A:201225_S_AT serine/arginine repetitive matrix 1 hs
HG-U133_PLUS_2:201225_S_AT serine/arginine repetitive matrix 1 hs
HG-U133A_2:201225_S_AT serine/arginine repetitive matrix 1 hs
HG-FOCUS:201225_S_AT serine/arginine repetitive matrix 1 hs
HU35KSUBA:AA282738_AT serine/arginine repetitive matrix 1 hs
HU35KSUBD:RC_AA282739_AT serine/arginine repetitive matrix 1 hs
U133_X3P:G5032118_3P_A_AT serine/arginine repetitive matrix 1 hs
U133_X3P:HS.18192.0.A1_3P_A_AT serine/arginine repetitive matrix 1 hs
HG-U133A_2:201224_S_AT serine/arginine repetitive matrix 1 hs
HG-U133_PLUS_2:201224_S_AT serine/arginine repetitive matrix 1 hs
HG-U133A:201224_S_AT serine/arginine repetitive matrix 1 hs
HG-U95AV2:41737_AT serine/arginine repetitive matrix 1 hs
HG-U95E:85257_AT serine/arginine repetitive matrix 1 hs
MOUSE430_2:1442330_AT serine/arginine repetitive matrix 1 mm
MOE430B:1442330_AT serine/arginine repetitive matrix 1 mm
MU11KSUBA:AA597269_S_AT serine/arginine repetitive matrix 1 mm
MU11KSUBB:MSA.14536.0_S_AT serine/arginine repetitive matrix 1 mm
MG-U74AV2:93521_AT serine/arginine repetitive matrix 1 mm
MG-U74AV2:93520_AT serine/arginine repetitive matrix 1 mm
MOE430A:1450045_AT serine/arginine repetitive matrix 1 mm
MOUSE430A_2:1450045_AT serine/arginine repetitive matrix 1 mm
MOUSE430_2:1450045_AT serine/arginine repetitive matrix 1 mm
MOE430A:1420934_A_AT serine/arginine repetitive matrix 1 mm
MOUSE430A_2:1420934_A_AT serine/arginine repetitive matrix 1 mm
MOUSE430_2:1420934_A_AT serine/arginine repetitive matrix 1 mm
MOE430A:1420935_A_AT serine/arginine repetitive matrix 1 mm
MOUSE430A_2:1420935_A_AT serine/arginine repetitive matrix 1 mm
MOUSE430_2:1420935_A_AT serine/arginine repetitive matrix 1 mm
MOE430A:1454689_AT serine/arginine repetitive matrix 1 mm
MOUSE430A_2:1454689_AT serine/arginine repetitive matrix 1 mm
MOUSE430_2:1454689_AT serine/arginine repetitive matrix 1 mm
MOE430B:1447447_S_AT serine/arginine repetitive matrix 1 mm
MOUSE430_2:1447447_S_AT serine/arginine repetitive matrix 1 mm
MOE430B:1459828_AT Serine/arginine repetitive matrix 1 (Srrm1), mRNA mm
MOUSE430_2:1459828_AT Serine/arginine repetitive matrix 1 (Srrm1), mRNA mm
MU19KSUBB:TC31405_AT Serine/arginine repetitive matrix 1 (Srrm1), mRNA mm
MU19KSUBB:TC33509_AT Serine/arginine repetitive matrix 1 (Srrm1), mRNA mm
MU19KSUBB:TC34641_AT Serine/arginine repetitive matrix 1 (Srrm1), mRNA mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6397 mRNA processing inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04214 Hypothetical protein F28D9.1 [Caenorhabditis elegans] ref|NP_492875.2| SR protein related family member (rsr-1) [Caenorhabditis elegans] 1.0E-103
blast CAE63488 Hypothetical protein CBG07956 [Caenorhabditis briggsae] 7.0E-89
blast CAB54229 Hypothetical protein F28D9.4 [Caenorhabditis elegans] ref|NP_492874.1| F28D9.4 [Caenorhabditis elegans] 6.0E-62
blast CAB04214 Hypothetical protein F28D9.1 [Caenorhabditis elegans] ref|NP_492875.2| SR protein related family member (rsr-1) [Caenorhabditis elegans] 5.0E-52
blast CAB04214 Hypothetical protein F28D9.1 [Caenorhabditis elegans] ref|NP_492875.2| SR protein related family member (rsr-1) [Caenorhabditis elegans] 7.0E-52
blast CAE63487 Hypothetical protein CBG07955 [Caenorhabditis briggsae] 1.0E-50
blast CAE63488 Hypothetical protein CBG07956 [Caenorhabditis briggsae] 1.0E-43
blast AAH58068 Serine/arginine repetitive matrix 1 [Danio rerio] ref|NP_998607.1| serine/arginine repetitive matrix 1 [Danio rerio] 5.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR002483 EMBL-EBI Splicing factor PWI 4.7E-47
Pfam IPR002483 EMBL-EBI Splicing factor PWI 1.1E-14
Pfam IPR002483 EMBL-EBI Splicing factor PWI 1.4E-24
Pfam IPR002483 EMBL-EBI Splicing factor PWI 1.4E-15
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000044706 1 513-535
GENEFINDER00000044709 2 169-191,857-879
Sequence
Target Sequence 
>C. ELEGANS:187907_S_AT
gacaaatcgctacaagaccctgagtaacgggcggtacactggtccggctcgggagaaagc
cgtccgcgacgatcgtattccggcaagagcgctgagcccgagaaaaactccgccacgacg
gaatgcgagtcctggaggagatggtggtggaggatcaccggccgccagacgaggtggatc
tgccgggaatcggagaagatcaccgccgagaaggggctcgccgagaagaggatccccgcg
aagagacaccagaagaagcccaccacgacgacgtggatctccgccggcacggggaggaga
tcgtcgggatcgtcgggaggatcgccgtccagattcggagcagcaggctccggtggccgt
aaagagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAAATCGCTACAAGACCCTGAGT 89 365 456 Antisense
GAGTAACGGGCGGTACACTGGTCCG 295 395 477 Antisense
GACGATCGTATTCCGGCAAGAGCGC 332 377 523 Antisense
CTGAGCCCGAGAAAAACTCCGCCAC 404 225 547 Antisense
GCCACGACGGAATGCGAGTCCTGGA 321 277 567 Antisense
CGAGGTGGATCTGCCGGGAATCGGA 697 247 625 Antisense
AGATCACCGCCGAGAAGGGGCTCGC 85 65 652 Antisense
CTCGCCGAGAAGAGGATCCCCGCGA 323 195 672 Antisense
CACCACGACGACGTGGATCTCCGCC 164 201 716 Antisense
TCGGGATCGTCGGGAGGATCGCCGT 153 605 759 Antisense
GCAGGCTCCGGTGGCCGTAAAGAGC 462 303 798 Antisense
Sequence Source Affymetrix Proprietary Database