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[171732_x_at]

Description g8515820 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=ZK637.7 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=ZK637.7 /WP=CE00437 /CHR=3 /FEA=Genomic Cluster /GEN=lin-9 /DEF=LIN-9L; locus:lin-9 (HINXTON) SW:P30630 protein_id:CAA77454.1
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 68      4grp_highest_8_8 > 50      4grp_high_8_8 > 40      6grp_highest_nonorm > 82      6grp_total > 69      4grp_total > 55      6grp_highest_sub > Cu      6grp_cgc > 29      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 255
1 2 3 4 range
A 409.4
(3)
P 		305.1
(-3)
P 		329.5
(-1.6)
P 		374.9
(1)
P 		104
B 309.5
(0.1)
P 		306.1
(-0.3)
P 		281.8
(-3)
P 		336
(3)
P 		54
C 484.2
(3)
P 		376.2
(0.5)
P 		372.9
(0.4)
P 		229
(-3)
P 		255
avr 401
(3) 		329.1
(-1.9) 		328.1
(-2) 		313.3
(-3) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 358
1 2 3 4 5 6 range
A 384
(-0.8)
P 		354.8
(-1.3)
P 		319
(-1.9)
P 		259
(-3)
P 		495.8
(1.2)
P 		597.3
(3)
P 		338
B 332.2
(-1.2)
P 		273
(-2.3)
P 		239
(-3)
P 		314
(-1.5)
P 		313.8
(-1.5)
P 		545.9
(3)
P 		307
C 334.1
(-0.7)
P 		403.9
(1.2)
P 		361.8
(0.1)
P 		252.7
(-3)
P 		315
(-1.3)
P 		466.4
(3)
P 		214
avr 350.1
(-1.3) 		343.9
(-1.4) 		306.6
(-2.3) 		275.2
(-3) 		374.9
(-0.7) 		536.5
(3) 		261
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 122
1 2 3 4 range
A 149.1
(3)
P 		66.2
(-2.3)
P 		86.1
(-1)
P 		54.9
(-3)
P 		94
B 98.7
(3)
P 		75.6
(-1.1)
P 		65.3
(-3)
P 		71.6
(-1.9)
P 		33
C 160.3
(3)
P 		108.2
(0.4)
P 		130
(1.5)
P 		38.6
(-3)
P 		122
avr 136
(3) 		83.3
(-0.9) 		93.8
(-0.1) 		55
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 70.8
(-2.6)
P 		126.2
(1.3)
P 		69.5
(-2.7)
P 		65.7
(-3)
P 		149.6
(3)
P 		145.4
(2.7)
P 		84
B 115.6
(-0.6)
P 		90.9
(-1.6)
P 		58
(-3)
P 		83.2
(-2)
P 		127.5
(-0.1)
P 		203.6
(3)
P 		146
C 123.8
(1.2)
P 		123.3
(1.1)
P 		92.1
(-0.6)
P 		50.8
(-3)
P 		101.9
(-0.1)
P 		156.1
(3)
P 		105
avr 103.4
(-0.8) 		113.5
(-0.2) 		73.2
(-2.6) 		66.6
(-3) 		126.3
(0.5) 		168.4
(3) 		102
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171732_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23973
Sequence Type Exemplar sequence
Representative Public ID 8515820 NCBI
Target Description g8515820 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=ZK637.7 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=ZK637.7 /WP=CE00437 /CHR=3 /FEA=Genomic Cluster /GEN=lin-9 /DEF=LIN-9L; locus:lin-9 (HINXTON) SW:P30630 protein_id:CAA77454.1
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_001027845(10), NM_001027844(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027845 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-9) (lin-9) mRNA, complete cds. 10/11 None
NM_001027844 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-9) (lin-9) mRNA, complete cds. 10/11 None
ZK637.7b ENSEMBL cdna:known chromosome:CEL140:III:8900139:8904033:-1 gene:ZK637.7 10/11 A 
ZK637.7a ENSEMBL cdna:known chromosome:CEL140:III:8900139:8904033:-1 gene:ZK637.7 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000013229 3/11 Cross Hyb Matching Probes None
SNAP00000013205 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:8900154-8904024(-) 98.43 100.0
Public Domain and Genome References
Ensembl ZK637.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC42391 Hypothetical protein ZK637.7b [Caenorhabditis elegans] ref|NP_001023016.1| abnormal cell LINeage family member (lin-9) [Caenorhabditis elegans] gb|AAF76192.1| LIN-9L [Caenorhabditis elegans] sp|P30630|LIN9_CAEEL Abnormal cell lineage protein 9 (Lin-9 protein) 0.0
blast CAA77454 Hypothetical protein ZK637.7a [Caenorhabditis elegans] ref|NP_001023015.1| abnormal cell LINeage family member (lin-9) [Caenorhabditis elegans] gb|AAF76193.1| LIN-9S [Caenorhabditis elegans] 0.0
blast S15794 lin-9 protein - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010561 EMBL-EBI DIRP 3.9E-72
Pfam IPR010561 EMBL-EBI DIRP 3.9E-72
Sequence
Target Sequence 
>C. ELEGANS:171732_X_AT
gtagagcacggtttgtggcactatagactgcagaataataatttattaatgaaaaaaaaa
attgaaaaggttcgcacaatgggaactcaaaagatctctgcagttgatcttcaatcactt
ggtgacgccatatctgaaattcggaccgctattcacccccgcaacgtggcattcttccaa
gactacgttgaagttcatatgaaacaatttcacacaattatgctcgaaagtggagcacta
gctggaactgtatcgaacagaaaataactaaaagcgtctcattttgtccaaaaaaacgcc
aaccggtcccgtcagtttttgtttttctgaatattctcagttctctcatctctgctctct
ctctctccccaccttcttcaatcactttgtgtcttttcaaaattgtacccgatcatgaga
cacatccccatttttcttattttttaaaagtagttcaaccttgataattcgaatgtgcca
aaattctattttcttcctcattgtcatcatcatcatcatcagttttcgagaaaaacgagc
caaataacgaaacccttgtcagttatactccac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAGAGCACGGTTTGTGGCACTATA 362 457 1580 Antisense
AATCACTTGGTGACGCCATATCTGA 260 171 1692 Antisense
CTGAAATTCGGACCGCTATTCACCC 680 235 1713 Antisense
CGCAACGTGGCATTCTTCCAAGACT 14 255 1739 Antisense
GGAGCACTAGCTGGAACTGTATCGA 153 521 1811 Antisense
TGAATATTCTCAGTTCTCTCATCTC 194 577 1907 Antisense
CCCACCTTCTTCAATCACTTTGTGT 368 259 1947 Antisense
TCATGAGACACATCCCCATTTTTCT 530 621 1992 Antisense
AAATTCTATTTTCTTCCTCATTGTC 236 115 2060 Antisense
GTCATCATCATCATCATCAGTTTTC 149 467 2082 Antisense
GAAACCCTTGTCAGTTATACTCCAC 243 357 2128 Antisense
Sequence Source GenBank