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[192161_s_at] zinc-finger protein

Description F42A9.2 /REP_DB=WormBase Gene ID /WP=CE07224 /GEN=lin-49 /TR=Q20318 /GB=AAB03164.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc-finger protein
Cluster 6grp_highest_10_10 > 54      6grp_high1_10_10 > 45      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 74      6grp_total > 36      4grp_total > 31      6grp_cgc > 25      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 445
1 2 3 4 range
A 915.4
(3)
P 		611.6
(-1.1)
P 		470.4
(-3)
P 		716.5
(0.3)
P 		445
B 915.3
(3)
P 		525.3
(-3)
P 		607.4
(-1.7)
P 		623.1
(-1.5)
P 		390
C 891.8
(3)
P 		547
(-3)
P 		547
(-3)
P 		756.8
(0.7)
P 		345
avr 907.5
(3) 		561.3
(-2.7) 		541.6
(-3) 		698.8
(-0.4) 		366

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 409
1 2 3 4 5 6 range
A 911.7
(3)
P 		769.3
(-0.5)
P 		667.4
(-3)
P 		675
(-2.8)
P 		815.5
(0.6)
P 		824
(0.8)
P 		244
B 700.5
(-0.7)
P 		797.3
(2.5)
P 		631.4
(-3)
P 		813
(3)
P 		691.7
(-1)
P 		740.7
(0.6)
P 		182
C 720.1
(-0.3)
P 		941.6
(3)
P 		701.6
(-0.5)
P 		933.1
(2.9)
P 		532.9
(-3)
P 		727.5
(-0.1)
P 		409
avr 777.4
(0.9) 		836.1
(3) 		666.8
(-3) 		807
(2) 		680
(-2.5) 		764.1
(0.4) 		169
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 228
1 2 3 4 range
A 333.3
(3)
P 		132.8
(-2.3)
P 		123
(-2.5)
P 		104.9
(-3)
P 		228
B 291.9
(3)
P 		129.7
(-3)
P 		140.8
(-2.6)
P 		132.8
(-2.9)
P 		162
C 295.2
(3)
P 		157.3
(-1.9)
P 		190.6
(-0.7)
P 		127.6
(-3)
P 		168
avr 306.8
(3) 		139.9
(-2.4) 		151.5
(-2) 		121.8
(-3) 		185

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 168.1
(-1.9)
P 		273.6
(3)
P 		145.3
(-3)
P 		171.2
(-1.8)
P 		246.1
(1.7)
P 		200.6
(-0.4)
P 		128
B 243.7
(1.2)
P 		265.4
(2.3)
P 		153.3
(-3)
P 		215.3
(-0.1)
P 		281
(3)
P 		276.2
(2.8)
P 		128
C 266.9
(1.9)
P 		287.3
(3)
P 		178.6
(-2.7)
P 		187.7
(-2.2)
P 		172.4
(-3)
P 		243.5
(0.7)
P 		115
avr 226.2
(0.5) 		275.4
(3) 		159.1
(-3) 		191.4
(-1.3) 		233.2
(0.8) 		240.1
(1.2) 		116
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192161_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8506
Sequence Type Exemplar sequence
Representative Public ID F42A9.2 NCBI
Target Description F42A9.2 /REP_DB=WormBase Gene ID /WP=CE07224 /GEN=lin-49 /TR=Q20318 /GB=AAB03164.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc-finger protein
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_069074(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069074 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-49) (lin-49) mRNA, complete cds. 11/11 A 
SNAP00000042137 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8620744:8625637:1 11/11 None
GENEFINDER00000042142 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8620744:8625637:1 11/11 None
F42A9.2 ENSEMBL cdna:known chromosome:CEL140:IV:8620680:8626131:1 gene:F42A9.2 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
chrIV:8620749-8625643(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc-finger protein
Gene Symbol lin-49
Ensembl F42A9.2
Entrez Gene 177666 Entrez gene
SwissProt Q20318 EMBL-EBI
WormBase CE07224 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1586537_AT similar to bromodomain containing protein 1 cfa
CANINE_2:CFA.2453.1.A1_AT similar to bromodomain containing protein 1 cfa
CANINE_2:CFAAFFX.2010.1.S1_S_AT similar to bromodomain containing protein 1 cfa
CHICKEN:GGA.16741.1.S1_S_AT bromodomain containing 1 gga
CHICKEN:GGA.8860.1.S1_AT bromodomain containing 1 gga
CHICKEN:GGAAFFX.22617.1.S1_AT bromodomain containing 1 gga
CHICKEN:GGAAFFX.22617.1.S1_S_AT bromodomain containing 1 gga
CHICKEN:GGAAFFX.5379.2.S1_AT bromodomain containing 1 gga
CHICKEN:GGAAFFX.5379.2.S1_S_AT bromodomain containing 1 gga
HG-U133_PLUS_2:215460_X_AT bromodomain containing 1 hs
HG-U133A_2:215460_X_AT bromodomain containing 1 hs
HG-FOCUS:215460_X_AT bromodomain containing 1 hs
HG-U133A:215460_X_AT bromodomain containing 1 hs
HG-U95AV2:41699_F_AT bromodomain containing 1 hs
HG-U133_PLUS_2:204520_X_AT bromodomain containing 1 hs
HG-U133A:204520_X_AT bromodomain containing 1 hs
HG-U133A_2:204520_X_AT bromodomain containing 1 hs
HU35KSUBA:AA116016_AT bromodomain containing 1 hs
HU35KSUBA:RC_AA194257_F_AT bromodomain containing 1 hs
HU35KSUBA:RC_AA194257_R_AT bromodomain containing 1 hs
HU35KSUBC:RC_D53392_F_AT bromodomain containing 1 hs
U133_X3P:G11321641_3P_X_AT bromodomain containing 1 hs
U133_X3P:HS.127950.1.A1_3P_A_AT bromodomain containing 1 hs
HG-U95AV2:39894_F_AT bromodomain containing 1 hs
HG-U95AV2:39895_R_AT bromodomain containing 1 hs
HU35KSUBD:RC_R67512_AT Hypothetical protein BC001742 hs
MOE430B:1438771_AT bromodomain containing 1 mm
MOUSE430_2:1438771_AT bromodomain containing 1 mm
MG-U74AV2:98468_R_AT bromodomain containing 1 mm
MG-U74BV2:111827_F_AT bromodomain containing 1 mm
MOE430A:1434821_AT bromodomain containing 1 mm
MOUSE430A_2:1434821_AT bromodomain containing 1 mm
MOUSE430_2:1434821_AT bromodomain containing 1 mm
MOE430B:1447420_AT MKIAA4191 protein mm
MOUSE430_2:1447420_AT MKIAA4191 protein mm
MOE430B:1456692_AT MKIAA4191 protein mm
MOUSE430_2:1456692_AT MKIAA4191 protein mm
MU19KSUBB:TC27601_AT MKIAA4191 protein mm
MU19KSUBB:TC30797_AT MKIAA4191 protein mm
RAE230B:1384024_AT bromodomain containing 1 (predicted) rn
RAT230_2:1384024_AT bromodomain containing 1 (predicted) rn
RAE230A:1375671_AT Bromodomain containing 1 (predicted) rn
RAT230_2:1375671_AT Bromodomain containing 1 (predicted) rn
RAE230B:1380145_AT Bromodomain containing 1 (predicted) rn
RAT230_2:1380145_AT Bromodomain containing 1 (predicted) rn
RAE230B:1385812_AT Bromodomain containing 1 (predicted) rn
RAT230_2:1385812_AT Bromodomain containing 1 (predicted) rn
RG-U34B:RC_AA956934_AT Bromodomain containing 1 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB03164 Abnormal cell lineage protein 49 [Caenorhabditis elegans] ref|NP_501475.1| abnormal cell LINeage family member (lin-49) [Caenorhabditis elegans] gb|AAD49323.1| bromodomain protein LIN-49 [Caenorhabditis elegans] sp|Q20318|LIN49_CAEEL Protein lin-49 (Abnormal cell lineage protein 49) 0.0
blast CAE60017 Hypothetical protein CBG03519 [Caenorhabditis briggsae] 1.0E-165
blast AAF59276 CG1845-PA [Drosophila melanogaster] gb|AAM50638.1| GH12223p [Drosophila melanogaster] ref|NP_610266.1| CG1845-PA [Drosophila melanogaster] 2.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR001487 EMBL-EBI Bromodomain 8.9E-21
Sequence
Target Sequence 
>C. ELEGANS:192161_S_AT
tatttgacactccaagtacctccaaagcttcatctttcacatctctatcatctactcgcc
cttcaaccagaagtacttctattattccaactatcaataagaaaaatgcattccgaatgt
catcagcatctattcaaagtccattgccaacgacgaaaaagattggagttcgagctatgg
caactgatgatgaagaagaagatatagttattcaacctcctccaaaagaaatgacaactc
aagaattggaagctgaaaaactgaaatcagctgaaaatgaagctatgtcaaagttcgcac
acaatcaattggttattgttgatggaagagctgcaaaagtaatcgaatctcgacttgctc
acttggcttccgatattcatcacgaacaaagacaatcaatgatgaaaaagcgtcgggaag
tactctctgaaatccctcaagccgcagttatttatgtggaattctttcaaaagtcgaaca
ctttagagaatttccaatgggtgacgcctgacaaagtggaacttctcgatttgaataata
tcggccaacgatcacctaaaattcccgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTTGACACTCCAAGTACCTCCAA 85 661 2519 Antisense
AAAGCTTCATCTTTCACATCTCTAT 197 125 2542 Antisense
TCTACTCGCCCTTCAACCAGAAGTA 82 615 2569 Antisense
GCATTCCGAATGTCATCAGCATCTA 640 307 2626 Antisense
TAGTTATTCAACCTCCTCCAAAAGA 71 653 2723 Antisense
AATCGAATCTCGACTTGCTCACTTG 168 169 2859 Antisense
CTCACTTGGCTTCCGATATTCATCA 56 229 2876 Antisense
AAAGCGTCGGGAAGTACTCTCTGAA 364 125 2925 Antisense
ATCCCTCAAGCCGCAGTTATTTATG 623 37 2950 Antisense
ATTTCCAATGGGTGACGCCTGACAA 313 15 3008 Antisense
GCCAACGATCACCTAAAATTCCCGG 17 277 3062 Antisense
Sequence Source Affymetrix Proprietary Database