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[188186_s_at] lin-25

Description F56H9.5 /REP_DB=WormBase Gene ID /WP=CE05975 /GEN=lin-25 /GB=CAA98967.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=lin-25
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 35      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 70      6grp_total > 35      4grp_total > 47      6grp_highest_sub > 02      6grp_cgc > 33      6grp_high1_sub > 02      6grp_cgc_sub > De      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 381
1 2 3 4 range
A 486
(3)
P 		187.5
(-3)
P 		199.7
(-2.8)
P 		236.4
(-2)
P 		299
B 521.1
(3)
P 		195.6
(-3)
P 		210.8
(-2.7)
P 		281.4
(-1.4)
P 		326
C 481.8
(3)
P 		140.5
(-3)
P 		186.8
(-2.2)
P 		193.1
(-2.1)
P 		341
avr 496.3
(3) 		174.5
(-3) 		199.1
(-2.5) 		237
(-1.8) 		322

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 404
1 2 3 4 5 6 range
A 341.1
(1.4)
P 		410.6
(3)
P 		381.9
(2.3)
P 		290.3
(0.3)
P 		147.7
(-3)
P 		213.5
(-1.5)
P 		263
B 498.1
(2.2)
P 		552.1
(3)
P 		345.9
(-0.2)
P 		260.2
(-1.6)
P 		170.5
(-3)
P 		233.1
(-2)
P 		382
C 375.6
(0.6)
P 		526
(3)
P 		329
(-0.2)
P 		297.3
(-0.7)
P 		151
(-3)
P 		288.6
(-0.8)
P 		375
avr 404.9
(1.4) 		496.2
(3) 		352.3
(0.5) 		282.6
(-0.8) 		156.4
(-3) 		245.1
(-1.4) 		340
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 176.9
(3)
P 		40.7
(-2.7)
P 		52.2
(-2.3)
P 		34.6
(-3)
P 		142
B 166.2
(3)
P 		48.3
(-3)
P 		48.8
(-3)
P 		60
(-2.4)
P 		118
C 159.5
(3)
P 		40.4
(-2.6)
P 		65.1
(-1.5)
P 		32.6
(-3)
P 		127
avr 167.5
(3) 		43.1
(-3) 		55.4
(-2.4) 		42.4
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 62.9
(-1.9)
P 		146
(3)
P 		83.2
(-0.7)
P 		73.6
(-1.3)
P 		44.6
(-3)
P 		52
(-2.6)
P 		101
B 173.3
(2.5)
P 		183.8
(3)
P 		84
(-2.2)
P 		68.9
(-3)
P 		69.3
(-3)
P 		86.9
(-2.1)
P 		115
C 139.2
(1.9)
P 		160.5
(3)
P 		83.7
(-1.1)
P 		59.8
(-2.4)
P 		48.9
(-3)
P 		96.6
(-0.4)
P 		112
avr 125.1
(0.9) 		163.4
(3) 		83.6
(-1.4) 		67.4
(-2.3) 		54.3
(-3) 		78.5
(-1.7) 		109
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188186_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13832
Sequence Type Exemplar sequence
Representative Public ID F56H9.5 NCBI
Target Description F56H9.5 /REP_DB=WormBase Gene ID /WP=CE05975 /GEN=lin-25 /GB=CAA98967.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=lin-25
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_073761(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073761 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-25) (lin-25) mRNA, complete cds. 11/11 A 
SNAP00000011548 ENSEMBL cdna:SNAP chromosome:CEL140:V:12656166:12661909:1 11/11 None
GENEFINDER00000011556 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12656196:12661213:1 11/11 None
F56H9.5 ENSEMBL cdna:known chromosome:CEL140:V:12652515:12661288:1 gene:F56H9.5 11/11 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
chrV:12652546-12661213(+) 100.0 100.0
Public Domain and Genome References
Gene Title lin-25
Gene Symbol lin-25
Ensembl F56H9.5
Entrez Gene 179732 Entrez gene
SwissProt Q10573 EMBL-EBI
Q7JLH0 EMBL-EBI
WormBase CE05975 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA98967 Hypothetical protein F56H9.5 [Caenorhabditis elegans] emb|CAA98951.1| Hypothetical protein F56H9.5 [Caenorhabditis elegans] ref|NP_506162.1| abnormal cell LINeage family member (lin-25) [Caenorhabditis elegans] sp|Q10573|LIN25_CAEEL Abnormal cell lineage protein 25 (Protein lin-25) gb|AAA66364.1| Lin-25 protein 0.0
blast AAG17638 LIN-25 [Caenorhabditis briggsae] emb|CAE63959.1| Hypothetical protein CBG08546 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:188186_S_AT
gactcctttccaacgtggtcaataccatcattcaacttctcaaatcaattgctggatctg
ctgattgcaaagcaaagcgtcttctggtcaaaagaatacctccagacttgatatttcaat
tggcatacatcgaaccatcttctgttgactattcactgatgaacatctattgtgatccgg
ataacaaggagcacacacaaacgaagattat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTCCTTTCCAACGTGGTCAATAC 161 375 3179 Antisense
GGTCAATACCATCATTCAACTTCTC 618 503 3195 Antisense
CTCAAATCAATTGCTGGATCTGCTG 119 229 3217 Antisense
GCTGGATCTGCTGATTGCAAAGCAA 181 295 3229 Antisense
GAATACCTCCAGACTTGATATTTCA 87 327 3272 Antisense
GGCATACATCGAACCATCTTCTGTT 513 537 3300 Antisense
GAACCATCTTCTGTTGACTATTCAC 709 345 3310 Antisense
TTCTGTTGACTATTCACTGATGAAC 20 695 3318 Antisense
GATGAACATCTATTGTGATCCGGAT 30 413 3336 Antisense
GTGATCCGGATAACAAGGAGCACAC 500 483 3350 Antisense
AGGAGCACACACAAACGAAGATTAT 577 55 3365 Antisense
Sequence Source Affymetrix Proprietary Database