[Home] | [Total List]

[189879_s_at] Yeast YD78 like

Description C47E12.7 /REP_DB=WormBase Gene ID /WP=CE20571 /TR=SW:Q18674 /GB=CAA93111.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Yeast YD78 like
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 68      4grp_highest_8_8 > 30      4grp_high_8_8 > 06      6grp_highest_nonorm > 92      6grp_total > 67      4grp_total > 03      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 407
1 2 3 4 range
A 458.2
(-1.8)
P
510.4
(-0.7)
P
401.8
(-3)
P
683.4
(3)
P
282
B 517.7
(-1.4)
P
421.8
(-3)
P
498
(-1.7)
P
772
(3)
P
350
C 418.8
(-1.9)
P
364.6
(-3)
P
442
(-1.4)
P
651.3
(3)
P
287
avr 464.9
(-2.3)
432.3
(-3)
447.3
(-2.7)
702.2
(3)
270

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 272
1 2 3 4 5 6 range
A 297.5
(0.7)
P
349.3
(3)
P
344
(2.8)
P
211.3
(-3)
P
314.5
(1.5)
P
324.1
(1.9)
P
138
B 295.8
(-0.9)
P
303.5
(-0.7)
P
275.7
(-1.6)
P
231.3
(-3)
P
269.9
(-1.7)
P
416.2
(3)
P
185
C 248.9
(-2.8)
P
296.9
(-1.6)
P
279.2
(-2.1)
P
242.4
(-3)
P
254
(-2.7)
P
482.8
(3)
P
240
avr 280.7
(-1.2)
316.6
(-0)
299.6
(-0.6)
228.3
(-3)
279.5
(-1.3)
407.7
(3)
179
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 166.8
(3)
P
110.8
(-2)
P
105
(-2.6)
P
100
(-3)
P
67
B 165.1
(3)
P
104.2
(-3)
P
115.4
(-1.9)
P
164.5
(2.9)
P
61
C 138.6
(1.1)
P
104.8
(-3)
P
154
(3)
P
109.8
(-2.4)
P
49
avr 156.8
(3)
106.6
(-3)
124.8
(-0.8)
124.8
(-0.8)
50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 54.8
(-2.9)
P
124.2
(3)
P
74.9
(-1.2)
P
53.6
(-3)
P
94.9
(0.5)
P
78.9
(-0.8)
P
71
B 102.9
(-0.3)
P
101
(-0.5)
P
67
(-2.6)
P
61.3
(-3)
P
109.7
(0.1)
P
155.2
(3)
P
94
C 92.2
(-0.7)
P
90.6
(-0.8)
P
71.1
(-1.8)
P
48.7
(-3)
P
82.2
(-1.2)
P
161.6
(3)
P
113
avr 83.3
(-0.8)
105.3
(0.9)
71
(-1.7)
54.5
(-3)
95.6
(0.2)
131.9
(3)
77
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189879_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9485
Sequence Type Exemplar sequence
Representative Public ID C47E12.7 NCBI
Target Description C47E12.7 /REP_DB=WormBase Gene ID /WP=CE20571 /TR=SW:Q18674 /GB=CAA93111.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Yeast YD78 like
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_069397(11)
Transcript Assignments
Representative
Transcript
Description Matching Probes Related Probesets by Grade
NM_069397 NCBI Caenorhabditis elegans C47E12.7 (C47E12.7) mRNA, complete cds. 11/11 None
SNAP00000021565 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9980815:9982238:-1 11/11 None
GENEFINDER00000021587 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9980815:9982238:-1 11/11 None
C47E12.7 ENSEMBL cdna:known chromosome:CEL140:IV:9980696:9982248:-1 gene:C47E12.7 11/11 None
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:9980820-9982244(-) 100.0 100.0
Public Domain and Genome References
Gene Title Yeast YD78 like
Ensembl C47E12.7
Entrez Gene 177853 Entrez gene
SwissProt Q18674 EMBL-EBI
WormBase CE20571 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246088_AT expressed protein at
CANINE_2:CFAAFFX.16643.1.S1_AT similar to NNP-1 protein (Novel nuclear protein 1) (Nucleolar protein Nop52) (D21S2056E) cfa
DROSOPHILA_2:1639509_AT dm
DROSGENOME1:146333_AT dm
HG-U133B:222733_X_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HG-U133_PLUS_2:222733_X_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HG-U133_PLUS_2:218758_S_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HG-U133A:218758_S_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HG-FOCUS:218758_S_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HG-U133A_2:218758_S_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HU35KSUBA:RC_AA477106_S_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HU35KSUBA:HUM_ALU_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HU35KSUBB:HUM_ALU_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HU35KSUBC:HUM_ALU_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HU35KSUBD:HUM_ALU_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HUGENEFL:HUM_ALU_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HC-G110:HUM_ALU_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HU35KSUBA:U79775_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
U133_X3P:G4503246_3P_A_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
U133_X3P:G12653222_3P_X_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
U133_X3P:222733_3P_X_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
HG-U95B:56952_AT DNA segment on chromosome 21 (unique) 2056 expressed sequence hs
MOUSE430_2:1427720_A_AT novel nuclear protein 1 mm
MOE430A:1427720_A_AT novel nuclear protein 1 mm
MOUSE430A_2:1427720_A_AT novel nuclear protein 1 mm
MU11KSUBA:U79773_S_AT novel nuclear protein 1 mm
MG-U74AV2:98604_AT novel nuclear protein 1 mm
MG-U74CV2:171344_AT novel nuclear protein 1 mm
MOE430A:1415957_A_AT novel nuclear protein 1 mm
MOUSE430A_2:1415957_A_AT novel nuclear protein 1 mm
MOUSE430_2:1415957_A_AT novel nuclear protein 1 mm
MG-U74CV2:166505_R_AT Novel nuclear protein 1 (Nnp1), mRNA mm
MU19KSUBA:TC19031_S_AT Novel nuclear protein 1 (Nnp1), mRNA mm
RG-U34C:RC_AI169448_AT novel nuclear protein 1 (predicted) rn
RAE230A:1372932_AT novel nuclear protein 1 (predicted) rn
RAT230_2:1372932_AT novel nuclear protein 1 (predicted) rn
YEAST_2:1776014_AT Essential evolutionarily conserved nucleolar protein necessary for biogenesis of 60S ribosomal subunits and processing of pre-rRNAs to mature rRNAs, associated with several distinct 66S pre-ribosomal particles Sc
Protein Similarities
Method ID Description E-Value
blast CAA93111 Hypothetical protein C47E12.7 [Caenorhabditis elegans] ref|NP_501798.1| C47E12.7 [Caenorhabditis elegans] sp|Q18674|YXX7_CAEEL Hypothetical protein C47E12.7 in chromosome IV 0.0
blast CAE59954 Hypothetical protein CBG03442 [Caenorhabditis briggsae] 0.0
blast CAH65053 hypothetical protein [Gallus gallus] ref|NP_001026505.1| hypothetical protein LOC425237 [Gallus gallus] 7.0E-33
Protein Domains
Database ID Description E-Value
Pfam IPR010301 EMBL-EBI Nucleolar, Nop52 6.9E-122
Sequence
Target Sequence
>C. ELEGANS:189879_S_AT
caagccatacattgaacttctcggaaacaaagacatcagtgaatatttgttcacatcact
ttatgaagaaattttcaaaactattctccagcagaaaagtgatttgatcaccgctgttga
agaaggagaagagatggatcaaggtggaattgaattcagttacaaggaaatcggagcgtt
gctatttgaagtgggaaagcaagaacatttaaatgctaagagaagaaagaagatctatga
tcttgttaagaagttcgataagagttctcgtggacaagatccattacatttcgagacccc
agttccaaaggagaggttgacaagacatgattatgaagaagccgagaagaaggccattgt
gttggccaacagcttcaagcaagagagaaagtcgtccagaaaagttaaaagccaaatcaa
aaagcgagctcgtgaggctgccgaagctgcacggcaggagaacggagatgatgttccaga
tgacgaaatcgctgaagttaaaaaaggaaatggaaagaaaacagcagttcctaaagtgaa
gaaagggcgcccacttttgaaagctaaag


BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position
Strandedness
CAAGCCATACATTGAACTTCTCGGA 358 185 579 Antisense
GAATATTTGTTCACATCACTTTATG 661 325 619 Antisense
GTGATTTGATCACCGCTGTTGAAGA 263 485 677 Antisense
CGGAGCGTTGCTATTTGAAGTGGGA 169 243 750 Antisense
AGAGTTCTCGTGGACAAGATCCATT 34 69 839 Antisense
AAGATCCATTACATTTCGAGACCCC 388 79 854 Antisense
TCGAGACCCCAGTTCCAAAGGAGAG 76 601 869 Antisense
GCCATTGTGTTGGCCAACAGCTTCA 513 281 931 Antisense
CGTGAGGCTGCCGAAGCTGCACGGC 255 245 1009 Antisense
GCTGCACGGCAGGAGAACGGAGATG 138 297 1024 Antisense
GGGCGCCCACTTTTGAAAGCTAAAG 20 489 1123 Antisense
Sequence Source Affymetrix Proprietary Database