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[193019_s_at] transcription factor lin-29

Description W03C9.4 /REP_DB=WormBase Gene ID /WP=CE28257 /GEN=lin-29 /TR=Q9N6B5 /GB=CAB60307.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transcription factor lin-29
Cluster 6grp_total > 81      4grp_total > 48      6grp_cgc > 85      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 4.4
(-3)
A 		58.4
(2.8)
A 		60.4
(3)
A 		13.4
(-2)
A 		56
B 2.3
(-3)
A 		22.3
(1.4)
A 		29.8
(3)
A 		15.9
(-0)
A 		28
C 3.2
(-3)
A 		13.9
(-1.2)
A 		38.2
(3)
A 		5.3
(-2.6)
A 		35
avr 3.3
(-3) 		31.5
(1.3) 		42.8
(3) 		11.5
(-1.8) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 151
1 2 3 4 5 6 range
A 3.7
(-3)
A 		60.9
(1)
A 		31
(-1.1)
A 		29.9
(-1.2)
A 		88.9
(3)
A 		12.1
(-2.4)
A 		85
B 8.5
(-3)
A 		33.6
(-1.7)
A 		82.9
(0.8)
A 		126.5
(3)
A 		79.1
(0.6)
A 		9.7
(-2.9)
A 		118
C 12.5
(-2.7)
A 		38.4
(-1.6)
A 		17.1
(-2.5)
A 		154.8
(3)
A 		12.1
(-2.7)
A 		4.3
(-3)
A 		151
avr 8.2
(-3) 		44.3
(-0.7) 		43.7
(-0.8) 		103.7
(3) 		60
(0.3) 		8.7
(-3) 		96
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 1.6
(-3)
A 		12.7
(1.7)
A 		15.8
(3)
A 		2
(-2.8)
A 		14
B 0.7
(-3)
A 		5.5
(1.6)
A 		6.9
(3)
A 		3.4
(-0.4)
A 		6
C 1
(-3)
A 		4
(-1.5)
A 		13.3
(3)
A 		0.9
(-3)
A 		12
avr 1.1
(-3) 		7.4
(0.5) 		12
(3) 		2.1
(-2.4) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 0.7
(-3)
A 		21.6
(1.8)
A 		6.8
(-1.6)
A 		7.6
(-1.4)
A 		26.8
(3)
A 		3
(-2.5)
A 		26
B 3
(-3)
A 		11.2
(-1.4)
A 		20.1
(0.4)
A 		33.5
(3)
A 		32.1
(2.7)
A 		3.6
(-2.9)
A 		31
C 4.6
(-2.4)
A 		11.7
(-0.9)
A 		4.4
(-2.4)
A 		31.1
(3)
A 		3.9
(-2.5)
A 		1.4
(-3)
A 		30
avr 2.8
(-3) 		14.8
(0.4) 		10.4
(-0.8) 		24.1
(3) 		20.9
(2.1) 		2.7
(-3) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193019_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3391
Sequence Type Exemplar sequence
Representative Public ID W03C9.4 NCBI
Target Description W03C9.4 /REP_DB=WormBase Gene ID /WP=CE28257 /GEN=lin-29 /TR=Q9N6B5 /GB=CAB60307.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transcription factor lin-29
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_064144(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064144 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-29) (lin-29) mRNA, complete cds. 11/11 A 
GENEFINDER00000003383 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11917672:11921381:-1 11/11 None
W03C9.4 ENSEMBL cdna:known chromosome:CEL140:II:11917546:11935247:-1 gene:W03C9.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000003382 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11918239-11933125(-) 99.56 100.0
Public Domain and Genome References
Gene Title transcription factor lin-29
Gene Symbol lin-29
Ensembl W03C9.4
Entrez Gene 174830 Entrez gene
SwissProt Q22867 EMBL-EBI
WormBase CE28257 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60308 Hypothetical protein W03C9.4 [Caenorhabditis elegans] emb|CAB60292.2| Hypothetical protein W03C9.4 [Caenorhabditis elegans] emb|CAB60307.2| Hypothetical protein W03C9.4 [Caenorhabditis elegans] ref|NP_496545.1| abnormal cell LINeage family member (lin-29) [Caenorhabditis elegans] gb|AAC37255.1| transcription factor 0.0
blast CAE59394 Hypothetical protein CBG02753 [Caenorhabditis briggsae] 0.0
blast CAB60308 Hypothetical protein W03C9.4 [Caenorhabditis elegans] emb|CAB60292.2| Hypothetical protein W03C9.4 [Caenorhabditis elegans] emb|CAB60307.2| Hypothetical protein W03C9.4 [Caenorhabditis elegans] ref|NP_496545.1| abnormal cell LINeage family member (lin-29) [Caenorhabditis elegans] gb|AAC37255.1| transcription factor 1.0E-169
blast CAE59394 Hypothetical protein CBG02753 [Caenorhabditis briggsae] 1.0E-163
blast T26491 hypothetical protein Y17G7A.2 - Caenorhabditis elegans 1.0E-129
blast T26491 hypothetical protein Y17G7A.2 - Caenorhabditis elegans 1.0E-125
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.3E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.3E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.9E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 4.6E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.3E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.3E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.9E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 4.6E-6
Sequence
Target Sequence 
>C. ELEGANS:193019_S_AT
agcctcttggatcacattccgaagcacaaagagtcaaagcatctgaagcgtcttaagatt
cacatttgcccgttttgcggaaaatcgtacactcaacagacttatctgcaaaagcacatg
acaaagcacgcggatcgatcgaaggccagcaattttggaaacgatgttgttcccgcagat
ccatttgatccttcacttctctcatggaatccaatgcaaggaatgggagataatgcacat
gactcgtcaagtttcaacattaaccagtttgccgccaatacaatgatcggctcgcagagc
acaaactacaacccagccttccagaatagtgcgttcagtcagctctttaatattcggaat
aatcgatatttgtccgagtacccgacgagtacgaagaatggagaacgagctcctgggttc
aacatgataaccccactggagaacatccaacgctacaacgggtcatcttcctcggccacg
gctgtcgtaacggcgaccggctcggccgtcgtctcatcgacaccctcatccacgtcatcc
tcgtcagcaggttcgtcctcaagtcagggaggcgtgttcaacccacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCCTCTTGGATCACATTCCGAAGC 483 81 754 Antisense
ATTCACATTTGCCCGTTTTGCGGAA 660 11 811 Antisense
AAGCACGCGGATCGATCGAAGGCCA 476 151 877 Antisense
GGAAACGATGTTGTTCCCGCAGATC 565 525 910 Antisense
CCTTCACTTCTCTCATGGAATCCAA 386 269 943 Antisense
AACCCAGCCTTCCAGAATAGTGCGT 639 145 1063 Antisense
AATAGTGCGTTCAGTCAGCTCTTTA 385 173 1078 Antisense
TATTTGTCCGAGTACCCGACGAGTA 703 659 1120 Antisense
ACGAGCTCCTGGGTTCAACATGATA 313 93 1158 Antisense
TCCAACGCTACAACGGGTCATCTTC 583 587 1199 Antisense
TCAGGGAGGCGTGTTCAACCCACAA 436 621 1317 Antisense
Sequence Source Affymetrix Proprietary Database