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[188185_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 > 22      6grp_high1_10_10 > 02      4grp_highest_8_8 > 51      4grp_high_8_8 > 32      6grp_highest_nonorm > 70      6grp_total > 24      4grp_total > 47      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 296
1 2 3 4 range
A 434
(3)
P 		220.6
(-1.8)
P 		165.2
(-3)
P 		178.9
(-2.7)
P 		269
B 315.1
(3)
P 		191.2
(-1.8)
P 		161.7
(-3)
P 		182.3
(-2.2)
P 		153
C 426.9
(3)
P 		137.7
(-3)
P 		180
(-2.1)
P 		200.7
(-1.7)
P 		289
avr 392
(3) 		183.2
(-2.6) 		169
(-3) 		187.3
(-2.5) 		223

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 275
1 2 3 4 5 6 range
A 393.5
(3)
P 		313.1
(1)
P 		264.4
(-0.2)
P 		305
(0.8)
P 		152.7
(-3)
P 		210.1
(-1.6)
P 		241
B 425.5
(3)
P 		349.1
(1.3)
P 		305.9
(0.4)
P 		228.7
(-1.3)
P 		150.2
(-3)
P 		212
(-1.7)
P 		275
C 324
(2.6)
P 		335.7
(3)
P 		321.4
(2.5)
P 		186.4
(-2.5)
P 		185
(-2.6)
P 		173.1
(-3)
P 		163
avr 381
(3) 		332.6
(1.7) 		297.2
(0.7) 		240
(-0.9) 		162.6
(-3) 		198.4
(-2) 		218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 158
(3)
P 		47.9
(-2)
P 		43.2
(-2.2)
P 		26.2
(-3)
P 		132
B 100.5
(3)
P 		47.2
(-2.1)
P 		37.5
(-3)
P 		38.9
(-2.9)
P 		63
C 141.3
(3)
P 		39.6
(-2.7)
P 		62.8
(-1.4)
P 		33.8
(-3)
P 		108
avr 133.3
(3) 		44.9
(-2.3) 		47.8
(-2.1) 		33
(-3) 		100

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 72.5
(-0.6)
P 		111.4
(3)
P 		57.6
(-1.9)
P 		77.4
(-0.1)
P 		46.1
(-3)
P 		51.2
(-2.5)
P 		65
B 148
(3)
P 		116.2
(0.8)
P 		74.3
(-2.1)
P 		60.6
(-3)
P 		61
(-3)
P 		79.1
(-1.7)
P 		87
C 120.1
(3)
P 		102.4
(1.7)
P 		81.8
(0.2)
P 		37.5
(-3)
P 		59.9
(-1.4)
P 		57.9
(-1.5)
P 		83
avr 113.5
(3) 		110
(2.6) 		71.2
(-1.4) 		58.5
(-2.7) 		55.7
(-3) 		62.7
(-2.3) 		58
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188185_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:188185_AT
agctcagtcgacatgatcttctcatttttaatgttggatgatctcaattccattattaga
attcatgaaagtttgatggcattttggttaagtgaggatgcaggacaatgtcaagctgat
ggaaggtttgacccattgtctattagagttgtgattcggttaatgacacaggttcttctg
attgctgaatggactcttgatcgtcttttgaacgaagatccagcttttgttgaacgtctt
aacctgaaagaagtaaaagctcctgaaccagaagatcctgataaaagagaaaaatggata
ttcttattgagaagtatgctcgaacgaactatcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCAGTCGACATGATCTTCTCAT 640 79 2818 Antisense
GGATGATCTCAATTCCATTATTAGA 153 515 2853 Antisense
GGAAGGTTTGACCCATTGTCTATTA 246 531 2938 Antisense
GATTCGGTTAATGACACAGGTTCTT 505 431 2970 Antisense
GACACAGGTTCTTCTGATTGCTGAA 200 367 2982 Antisense
GATTGCTGAATGGACTCTTGATCGT 173 435 2997 Antisense
TGGACTCTTGATCGTCTTTTGAACG 48 549 3007 Antisense
TGAACGAAGATCCAGCTTTTGTTGA 131 573 3026 Antisense
GCTTTTGTTGAACGTCTTAACCTGA 413 305 3040 Antisense
AAAGCTCCTGAACCAGAAGATCCTG 207 125 3073 Antisense
GAAGTATGCTCGAACGAACTATCAA 21 337 3128 Antisense
Sequence Source Affymetrix Proprietary Database