[Home] | [Total List]

[173100_s_at] fibrillarin

Description AV184781_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV184781 /DEF=Caenorhabditis elegans cDNA clone:yk669d5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 08      4grp_high_8_8 > 53      6grp_highest_nonorm > 37      6grp_total > 49      4grp_total > 59      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10062
1 2 3 4 range
A 9175.3
(-0.1)
P 		14188.2
(3)
P 		12910.3
(2.2)
P 		4498.9
(-3)
P 		9689
B 8963.8
(0.6)
P 		11807
(2.8)
P 		12004
(3)
P 		4329
(-3)
P 		7675
C 8066
(0.4)
P 		11144.9
(3)
P 		11031.4
(2.9)
P 		4126.4
(-3)
P 		7019
avr 8735
(0.3) 		12380
(3) 		11981.9
(2.7) 		4318.1
(-3) 		8062

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3116
1 2 3 4 5 6 range
A 6814.5
(2.5)
P 		4909.8
(-1.1)
P 		4547.9
(-1.8)
P 		3946.2
(-3)
P 		5491.9
(-0)
P 		7062.6
(3)
P 		3116
B 6239.5
(2.5)
P 		5236.9
(-0.7)
P 		4797.3
(-2.1)
P 		4527.9
(-3)
P 		5201.9
(-0.8)
P 		6405.8
(3)
P 		1878
C 5377.4
(1)
P 		5585.7
(1.6)
P 		4207.9
(-2.4)
P 		3998.2
(-3)
P 		5152.1
(0.4)
P 		6064.7
(3)
P 		2067
avr 6143.8
(2.1) 		5244.1
(-0.2) 		4517.7
(-2.1) 		4157.4
(-3) 		5282
(-0.1) 		6511
(3) 		2354
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3186
1 2 3 4 range
A 3340.7
(2.9)
P 		3079.9
(2.3)
P 		3375
(3)
P 		658.5
(-3)
P 		2717
B 2858.5
(2.8)
P 		2916.1
(3)
P 		2781.6
(2.6)
P 		922.5
(-3)
P 		1994
C 2670.1
(0.8)
P 		3204.2
(1.8)
P 		3844.8
(3)
P 		695.8
(-3)
P 		3149
avr 2956.4
(2.1) 		3066.7
(2.4) 		3333.8
(3) 		758.9
(-3) 		2575

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1585
1 2 3 4 5 6 range
A 1256.2
(-0.9)
P 		1746.2
(3)
P 		990.4
(-3)
P 		1000.9
(-2.9)
P 		1657.2
(2.3)
P 		1719.5
(2.8)
P 		756
B 2171.1
(1.9)
P 		1743.2
(-0.2)
P 		1164.9
(-3)
P 		1199.3
(-2.8)
P 		2113.5
(1.7)
P 		2388.7
(3)
P 		1224
C 1993.2
(2.8)
P 		1704.4
(1.4)
P 		1071
(-1.7)
P 		804
(-3)
P 		1667.1
(1.2)
P 		2030.2
(3)
P 		1226
avr 1806.8
(1.6) 		1731.3
(1.2) 		1075.4
(-2.6) 		1001.4
(-3) 		1812.6
(1.7) 		2046.1
(3) 		1045
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173100_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26890
Sequence Type Exemplar sequence
Representative Public ID AV184781 NCBI
Target Description AV184781_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV184781 /DEF=Caenorhabditis elegans cDNA clone:yk669d5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_074290(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074290 NCBI Caenorhabditis elegans T01C3.7 (fibrillarin) mRNA, complete cds. 11/11 A 
SNAP00000022415 ENSEMBL cdna:SNAP chromosome:CEL140:V:15003354:15004554:-1 11/11 None
GENEFINDER00000022423 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15003354:15004554:-1 11/11 None
T01C3.7.2 ENSEMBL cdna:known chromosome:CEL140:V:15003221:15004555:-1 gene:T01C3.7 11/11 A 
T01C3.7.1 ENSEMBL cdna:known chromosome:CEL140:V:15003238:15004555:-1 gene:T01C3.7 11/11 A 
T01C3.7.3 ENSEMBL cdna:known chromosome:CEL140:V:15003238:15004562:-1 gene:T01C3.7 11/11 A 
T01C3.7.4 ENSEMBL cdna:known chromosome:CEL140:V:15003271:15004686:-1 gene:T01C3.7 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
chrV:15003367-15003592(-) 68.75 68.75
Public Domain and Genome References
Gene Title fibrillarin
Gene Symbol fib-1
Ensembl T01C3.7
Entrez Gene 179999 Entrez gene
SwissProt Q22053 EMBL-EBI
WormBase CE12920 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16991_AT fibrillarin 2 (FIB2) at
ATH1-121501:254080_AT fibrillarin 2 (FIB2) at
CANINE:1583472_AT similar to fibrillarin cfa
CANINE_2:CFA.8841.1.A1_S_AT similar to fibrillarin cfa
DROSOPHILA_2:1626444_AT Fibrillarin dm
DROSGENOME1:153601_AT Fibrillarin dm
HG-U133_PLUS_2:211623_S_AT fibrillarin hs
HG-U133A:211623_S_AT fibrillarin hs
HG-U133A_2:211623_S_AT fibrillarin hs
HU35KSUBA:X56597_S_AT fibrillarin hs
HUGENEFL:M30448_S_AT fibrillarin hs
U133_X3P:G181154_3P_S_AT fibrillarin hs
U133_X3P:211623_3P_S_AT fibrillarin hs
HG-U95AV2:32843_S_AT fibrillarin hs
HG-U95AV2:39173_AT fibrillarin hs
MU11KSUBB:Z22593_S_AT fibrillarin mm
MU11KSUBB:MSA.3842.0_F_AT fibrillarin mm
MG-U74AV2:160503_AT fibrillarin mm
MOE430A:1416685_S_AT fibrillarin mm
MOUSE430A_2:1416685_S_AT fibrillarin mm
MOUSE430_2:1416685_S_AT fibrillarin mm
MOE430A:1416684_AT fibrillarin mm
MOUSE430A_2:1416684_AT fibrillarin mm
MOUSE430_2:1416684_AT fibrillarin mm
RG-U34B:RC_AA955914_I_AT fibrillarin (predicted) rn
RG-U34B:RC_AA955914_S_AT fibrillarin (predicted) rn
RG-U34C:RC_AI171263_AT fibrillarin (predicted) rn
RAE230A:1388528_AT fibrillarin (predicted) rn
RAT230_2:1388528_AT fibrillarin (predicted) rn
RG-U34B:RC_AA997741_AT Fibrillarin (predicted) rn
YEAST_2:1776859_AT Nucleolar protein, component of the small subunit processome complex, which is required for processing of pre-18S rRNA; has similarity to mammalian fibrillarin Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6364 rRNA processing inferred from electronic annotation QuickGO AmiGO
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
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01657 Hypothetical protein T01C3.7 [Caenorhabditis elegans] ref|NP_506691.1| T01C3.7 [Caenorhabditis elegans] sp|Q22053|FBRL_CAEEL Fibrillarin 1.0E-132
blast CAE66337 Hypothetical protein CBG11588 [Caenorhabditis briggsae] 1.0E-132
Protein Domains
Database ID Description E-Value
Pfam IPR000692 EMBL-EBI Fibrillarin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173100_S_AT
tcgtattgttgctctcaatgcccaaaacttccttcgcaacggtggacatgccgtcatctc
tatcaaagctaattgcattgacagtactgctgagcccgaggctgtat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGTATTGTTGCTCTCAATGCCCAA 624 603 14 Antisense
TCAATGCCCAAAACTTCCTTCGCAA 35 633 28 Antisense
AAACTTCCTTCGCAACGGTGGACAT 559 67 38 Antisense
TTCCTTCGCAACGGTGGACATGCCG 688 695 42 Antisense
GCAACGGTGGACATGCCGTCATCTC 429 319 49 Antisense
AACGGTGGACATGCCGTCATCTCTA 347 137 51 Antisense
ACATGCCGTCATCTCTATCAAAGCT 442 105 59 Antisense
TGCCGTCATCTCTATCAAAGCTAAT 5 585 62 Antisense
GTCATCTCTATCAAAGCTAATTGCA 148 467 66 Antisense
AGCTAATTGCATTGACAGTACTGCT 199 79 80 Antisense
AGTACTGCTGAGCCCGAGGCTGTAT 587 61 96 Antisense
Sequence Source Affymetrix Proprietary Database