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[171871_x_at]

Description CEK113G9R_rc /REP_DB=TREMBL Accession /GB=D73088 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk113g9 : 3prime end, single read.
Cluster 4grp_high_8_8 > 50      6grp_total > 38      4grp_total > 61      6grp_cgc > 07      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 224
1 2 3 4 range
A 361.6
(3)
P 		279.1
(0.7)
P 		216.5
(-1.1)
P 		149.6
(-3)
A 		212
B 274.3
(1.1)
P 		300
(2.1)
P 		322.5
(3)
P 		172.8
(-3)
P 		150
C 343.5
(3)
P 		281.9
(1.2)
P 		299.8
(1.7)
P 		137.3
(-3)
A 		206
avr 326.5
(3) 		287
(1.6) 		279.6
(1.4) 		153.2
(-3) 		173

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 247
1 2 3 4 5 6 range
A 175.1
(0.8)
M 		125.5
(-1)
P 		160.3
(0.2)
P 		71.7
(-3)
A 		106.2
(-1.7)
M 		235.7
(3)
P 		164
B 246.7
(3)
P 		101.6
(-1.4)
P 		225.1
(2.3)
P 		49.2
(-3)
A 		93.7
(-1.6)
M 		233.9
(2.6)
P 		198
C 295.7
(3)
P 		112.6
(-1.8)
P 		67.7
(-3)
A 		82.7
(-2.6)
A 		165.9
(-0.4)
P 		148.8
(-0.9)
P 		228
avr 239.2
(3) 		113.2
(-1.4) 		151
(-0.1) 		67.9
(-3) 		121.9
(-1.1) 		206.1
(1.8) 		171
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 131.7
(3)
P 		60.6
(-0.9)
P 		56.6
(-1.1)
P 		21.9
(-3)
A 		110
B 87.5
(3)
P 		74.1
(1.4)
P 		74.7
(1.5)
P 		36.8
(-3)
P 		51
C 113.7
(3)
P 		81
(0.8)
P 		104.5
(2.4)
P 		23.2
(-3)
A 		91
avr 111
(3) 		71.9
(0.2) 		78.6
(0.7) 		27.3
(-3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 32.3
(-0.8)
M 		44.6
(1)
P 		34.9
(-0.4)
P 		18.2
(-3)
A 		32.1
(-0.9)
M 		57.4
(3)
P 		39
B 85.8
(2.9)
P 		33.8
(-1.3)
P 		54.7
(0.4)
P 		13
(-3)
A 		38.1
(-1)
M 		87.2
(3)
P 		74
C 109.6
(3)
P 		34.4
(-1.9)
P 		17.2
(-3)
A 		16.6
(-3)
A 		53.7
(-0.6)
P 		49.8
(-0.9)
P 		93
avr 75.9
(3) 		37.6
(-0.8) 		35.6
(-1) 		15.9
(-3) 		41.3
(-0.5) 		64.8
(1.9) 		60
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171871_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27936
Sequence Type Exemplar sequence
Representative Public ID CEK113G9R NCBI
Target Description CEK113G9R_rc /REP_DB=TREMBL Accession /GB=D73088 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk113g9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_060474
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F28D9.1 ENSEMBL cdna:known chromosome:CEL140:I:11185967:11190187:-1 gene:F28D9.1 A 
NM_060474 NCBI Caenorhabditis elegans SR protein related family member (rsr-1) (rsr-1) mRNA, complete cds. A 
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:11185936-11186176(-) 75.08 75.08
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 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
Sequence
Target Sequence 
>C. ELEGANS:171871_X_AT
tcttcgtaagaaggcccagaaggagnaggaggccnccnagaagcataagaaggagagaaa
ganccccaaacaccggaaacgccgttctccaagcgcatccgaatcgggatctgaaagtga
ct

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTCGTAAGAAGGCCCAGAAGGAG 269 617 19 Antisense
TTCTCCAAGCGCATCCGAATCGGGA 423 691 103 Antisense
TCTCCAAGCGCATCCGAATCGGGAT 537 607 104 Antisense
CTCCAAGCGCATCCGAATCGGGATC 696 235 105 Antisense
CCAAGCGCATCCGAATCGGGATCTG 430 275 107 Antisense
CAAGCGCATCCGAATCGGGATCTGA 709 183 108 Antisense
AAGCGCATCCGAATCGGGATCTGAA 618 149 109 Antisense
AGCGCATCCGAATCGGGATCTGAAA 202 83 110 Antisense
GCGCATCCGAATCGGGATCTGAAAG 633 287 111 Antisense
GCATCCGAATCGGGATCTGAAAGTG 551 307 113 Antisense
TCCGAATCGGGATCTGAAAGTGACT 559 591 116 Antisense
Sequence Source Affymetrix Proprietary Database