[Home] | [Total List]

[189678_at] RBB3 like protein

Description F49E12.6 /REP_DB=WormBase Gene ID /WP=CE03382 /TR=Q20619 /GB=CAA91391.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RBB3 like protein
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 46      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 82      6grp_total > 37      4grp_total > 59      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 584
1 2 3 4 range
A 452.8
(0.4)
P 		595
(1.9)
P 		700.8
(3)
P 		117.4
(-3)
P 		583
B 561
(1.9)
P 		490.7
(1.1)
P 		660.4
(3)
P 		132.6
(-3)
P 		528
C 462
(1.4)
P 		568.4
(2.7)
P 		589.6
(3)
P 		116.4
(-3)
P 		473
avr 491.9
(1.2) 		551.4
(1.9) 		650.3
(3) 		122.1
(-3) 		528

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 224
1 2 3 4 5 6 range
A 522.5
(3)
P 		450.8
(1.1)
P 		338.9
(-2)
P 		338.5
(-2)
P 		300.8
(-3)
P 		415.7
(0.1)
P 		222
B 428.4
(3)
P 		368.5
(0.2)
P 		329.9
(-1.6)
P 		380
(0.8)
P 		298.7
(-3)
P 		377.2
(0.6)
P 		130
C 415.4
(3)
P 		389.7
(1.7)
P 		375
(0.9)
P 		382.3
(1.3)
P 		299.9
(-3)
P 		389
(1.6)
P 		116
avr 455.4
(3) 		403
(1) 		347.9
(-1.1) 		366.9
(-0.4) 		299.8
(-3) 		394
(0.6) 		156
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 188
1 2 3 4 range
A 164.9
(2.3)
P 		129.2
(1)
P 		183.2
(3)
P 		17.2
(-3)
P 		166
B 178.9
(3)
P 		121.2
(0.7)
P 		153
(2)
P 		28.3
(-3)
P 		151
C 152.9
(1.3)
P 		163.4
(1.6)
P 		205.5
(3)
P 		19.6
(-3)
P 		186
avr 165.6
(2.4) 		137.9
(1.4) 		180.6
(3) 		21.7
(-3) 		159

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 96.3
(-1.4)
P 		160.3
(3)
P 		73.8
(-3)
P 		85.9
(-2.2)
P 		90.8
(-1.8)
P 		101.2
(-1.1)
P 		87
B 149.1
(3)
P 		122.7
(0.7)
P 		80.1
(-3)
P 		100.6
(-1.2)
P 		121.4
(0.6)
P 		140.7
(2.3)
P 		69
C 154
(3)
P 		118.9
(0.3)
P 		95.4
(-1.6)
P 		76.9
(-3)
P 		97.1
(-1.4)
P 		130.2
(1.1)
P 		77
avr 133.1
(2.9) 		134
(3) 		83.1
(-3) 		87.8
(-2.4) 		103.1
(-0.6) 		124
(1.8) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189678_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3101
Sequence Type Exemplar sequence
Representative Public ID F49E12.6 NCBI
Target Description F49E12.6 /REP_DB=WormBase Gene ID /WP=CE03382 /TR=Q20619 /GB=CAA91391.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RBB3 like 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_063370(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063370 NCBI Caenorhabditis elegans F49E12.6 (F49E12.6) mRNA, complete cds. 9/11 None
SNAP00000030004 ENSEMBL cdna:SNAP chromosome:CEL140:II:8412621:8415033:1 9/11 None
GENEFINDER00000030005 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8412621:8416426:1 9/11 None
F49E12.6 ENSEMBL cdna:known chromosome:CEL140:II:8412593:8416755:1 gene:F49E12.6 9/11 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
chrII:8412617-8415540(+) 100.0 100.0
Public Domain and Genome References
Gene Title RBB3 like protein
Ensembl F49E12.6
Entrez Gene 174341 Entrez gene
SwissProt Q20619 EMBL-EBI
WormBase CE37018 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
74 regulation of progression through cell cycle inferred from electronic annotation QuickGO AmiGO
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5667 transcription factor complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91391 Hypothetical protein F49E12.6 [Caenorhabditis elegans] ref|NP_495771.2| F49E12.6 [Caenorhabditis elegans] 0.0
blast CAE57683 Hypothetical protein CBG00680 [Caenorhabditis briggsae] 0.0
blast XP_539692 PREDICTED: similar to E2F transcription factor 7 [Canis familiaris] 1.0E-26
Protein Domains
Database ID Description E-Value
Pfam IPR003316 EMBL-EBI Transcription factor E2F/dimerisation partner (TDP) 5.4E-5
Sequence
Target Sequence 
>C. ELEGANS:189678_AT
aaatgcaccacttacatcttcacagcatccaatgacatccaggcttccacctcttccaat
ggctcctcttcaacttcccaagcttccagagattccaaagccacaggctcaaaagcagtt
tacattcccagcaacgtctaggcctcgattcaatttccctgactatacacctgtgcaatc
gacaatacgcccactcgtatctcagatgacatttccacaagaatcttcgcaacttcacaa
tttagacgtcaagccaaaacatttgatgtccaacattcttggcgaatcgaagaaatttaa
gaataatcagaatacgttcgagcacacgacatcttccgcattccaggtggttaagaaagg
agagacacgaccaaaattttttatattcactaataattgctcacttcctcgcatttcctc
acgatatgtaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATGCACCACTTACATCTTCACAG 462 119 1407 Antisense
AGCATCCAATGACATCCAGGCTTCC 708 77 1430 Antisense
TTCCCAAGCTTCCAGAGATTCCAAA 293 697 1481 Antisense
TTTACATTCCCAGCAACGTCTAGGC 447 671 1525 Antisense
TCTAGGCCTCGATTCAATTTCCCTG 430 611 1543 Antisense
TTCCCTGACTATACACCTGTGCAAT 705 697 1561 Antisense
GAATCTTCGCAACTTCACAATTTAG 171 329 1627 Antisense
TACGTTCGAGCACACGACATCTTCC 189 649 1719 Antisense
ATCTTCCGCATTCCAGGTGGTTAAG 58 31 1737 Antisense
TAATAATTGCTCACTTCCTCGCATT 669 633 1797 Antisense
CTCGCATTTCCTCACGATATGTACA 682 231 1814 Antisense
Sequence Source Affymetrix Proprietary Database