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[174562_s_at] Human XE169 like

Description CEK006BXR_rc /REP_DB=TREMBL Accession /GB=D27035 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk6b10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 49      4grp_highest_8_8 > 37      4grp_high_8_8 > 03      6grp_highest_nonorm > 68      6grp_total > 48      4grp_total > 06      6grp_highest_sub > Cu      6grp_cgc > 09      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1812
1 2 3 4 range
A 2009.7
(2)
P 		1059.1
(-3)
P 		2001.7
(2)
P 		2198.1
(3)
P 		1139
B 2070.8
(1)
P 		1190.8
(-1.9)
P 		867.6
(-3)
P 		2679.6
(3)
P 		1812
C 1771.1
(0.2)
P 		1116.2
(-3)
P 		1599.8
(-0.7)
P 		2355.7
(3)
P 		1240
avr 1950.5
(0.9) 		1122
(-3) 		1489.7
(-1.3) 		2411.1
(3) 		1289

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1765
1 2 3 4 5 6 range
A 2867.2
(3)
P 		1886.5
(-0.5)
P 		1192.3
(-3)
P 		1937.3
(-0.3)
P 		2286.9
(0.9)
P 		2017.6
(-0)
P 		1675
B 1932.6
(1.5)
P 		1762.2
(0.6)
P 		1102.7
(-3)
P 		2026.3
(2)
P 		1645.2
(-0.1)
P 		2216.4
(3)
P 		1114
C 1730.1
(-2)
P 		1681.5
(-2.4)
P 		2211.8
(1.5)
P 		2079
(0.6)
P 		1593.8
(-3)
P 		2411.6
(3)
P 		818
avr 2176.6
(2.7) 		1776.7
(-0.7) 		1502.3
(-3) 		2014.2
(1.3) 		1842
(-0.1) 		2215.2
(3) 		713
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 531
1 2 3 4 range
A 731.7
(3)
P 		229.9
(-3)
P 		523.3
(0.5)
P 		321.8
(-1.9)
P 		502
B 660.3
(3)
P 		294.1
(-1.8)
P 		201
(-3)
P 		571
(1.8)
P 		459
C 586.3
(3)
P 		320.9
(-3)
P 		557.6
(2.4)
P 		397.2
(-1.3)
P 		265
avr 659.4
(3) 		281.6
(-3) 		427.3
(-0.7) 		430
(-0.6) 		378

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 567
1 2 3 4 5 6 range
A 528.5
(0.7)
P 		670.9
(2.7)
P 		259.7
(-3)
P 		491.3
(0.2)
P 		690.1
(3)
P 		491.2
(0.2)
P 		430
B 672.4
(1.3)
P 		586.6
(0.4)
P 		267.8
(-3)
P 		536.7
(-0.1)
P 		668.4
(1.3)
P 		826.5
(3)
P 		559
C 641.3
(0.4)
P 		513.1
(-1.5)
P 		562.9
(-0.8)
P 		418.1
(-3)
P 		515.7
(-1.5)
P 		807.3
(3)
P 		389
avr 614.1
(1.4) 		590.2
(0.9) 		363.5
(-3) 		482
(-0.9) 		624.7
(1.5) 		708.3
(3) 		345
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174562_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21444
Sequence Type Exemplar sequence
Representative Public ID CEK006BXR NCBI
Target Description CEK006BXR_rc /REP_DB=TREMBL Accession /GB=D27035 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk6b10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_069631(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069631 NCBI Caenorhabditis elegans RB (Retinoblastoma Binding protein) Related family member (rbr-2) (rbr-2) mRNA, complete cds. 11/11 None
ZK593.4 ENSEMBL cdna:known chromosome:CEL140:IV:10920077:10926767:1 gene:ZK593.4 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:10926276-10926739(+) 100.0 100.0
Public Domain and Genome References
Gene Title Human XE169 like
Gene Symbol rbr-2
Ensembl ZK593.4
Entrez Gene 177985 Entrez gene
SwissProt Q23541 EMBL-EBI
WormBase CE35704 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1587753_AT similar to Jumonji/ARID domain-containing protein 1A (Retinoblastoma-binding protein 2) (RBBP-2) cfa
CANINE_2:CFA.15175.1.A1_AT similar to Jumonji/ARID domain-containing protein 1A (Retinoblastoma-binding protein 2) (RBBP-2) cfa
CANINE_2:CFAAFFX.24177.1.S1_AT similar to Jumonji/ARID domain-containing protein 1A (Retinoblastoma-binding protein 2) (RBBP-2) cfa
CANINE_2:CFAAFFX.24187.1.S1_AT similar to Jumonji/ARID domain-containing protein 1A (Retinoblastoma-binding protein 2) (RBBP-2) cfa
DROSOPHILA_2:1633855_S_AT little imaginal discs dm
DROSGENOME1:154899_AT little imaginal discs dm
CHICKEN:GGA.16739.1.S1_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) gga
CHICKEN:GGAAFFX.24080.1.S1_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) gga
CHICKEN:GGAAFFX.24080.1.S1_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) gga
HG-U95AV2:1785_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HC-G110:1785_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133_PLUS_2:202040_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133A:202040_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133A_2:202040_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HU35KSUBD:RC_AA487492_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HU35KSUBD:RC_AA485247_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HUGENEFL:S66431_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
U133_X3P:G4826967_3P_A_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U95AV2:36999_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U95B:50532_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133_PLUS_2:215698_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133A_2:215698_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-FOCUS:215698_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133A:215698_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133_PLUS_2:230226_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133B:230226_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HU35KSUBA:RC_AA052952_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HU35KSUBB:RC_W76547_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HU35KSUBB:RC_T16429_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
U133_X3P:HS.76272.1.S1_3P_S_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
U133_X3P:HS.6567.1.S2_3P_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
U133_X3P:HS.6567.1.S1_3P_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
U133_X3P:HS.6567.0.S1_3P_A_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133_PLUS_2:226367_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133B:226367_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133_PLUS_2:226371_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U133B:226371_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U95B:54023_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U95B:57505_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
HG-U95E:81824_AT Jumonji, AT rich interactive domain 1A (RBBP2-like) hs
MOUSE430_2:1444842_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOE430B:1444842_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MU11KSUBA:AA409370_RC_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MU11KSUBB:MSA.35465.0_S_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MG-U74AV2:92299_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MG-U74BV2:114257_R_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MG-U74CV2:135456_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOE430A:1452360_A_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOUSE430A_2:1452360_A_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOUSE430_2:1452360_A_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOE430B:1437105_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOUSE430_2:1437105_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOE430B:1437106_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOUSE430_2:1437106_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOE430B:1441318_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOUSE430_2:1441318_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOE430B:1445541_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MOUSE430_2:1445541_AT jumonji, AT rich interactive domain 1A (Rbp2 like) mm
MU19KSUBA:TC16524_AT Jumonji, AT rich interactive domain 1A (Rbp2 like), mRNA (cDNA clone MGC:11659 IMAGE:3603073) mm
MU19KSUBA:TC16531_AT Jumonji, AT rich interactive domain 1A (Rbp2 like), mRNA (cDNA clone MGC:11659 IMAGE:3603073) mm
MU19KSUBC:TC37647_AT Jumonji, AT rich interactive domain 1A (Rbp2 like), mRNA (cDNA clone MGC:11659 IMAGE:3603073) mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5634 nucleus 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 CAA93426 Hypothetical protein ZK593.4 [Caenorhabditis elegans] ref|NP_502032.2| RB (Retinoblastoma Binding protein) Related family member (rbr-2) [Caenorhabditis elegans] 0.0
blast CAE61959 Hypothetical protein CBG05959 [Caenorhabditis briggsae] 0.0
blast XP_394350 PREDICTED: similar to Retinoblastoma-binding protein 2 (RBBP-2) [Apis mellifera] 1.0E-169
Protein Domains
Database ID Description E-Value
scop a.4.3.ARID domain All alpha proteins; DNA/RNA-binding 3-helical bundle; ARID-like; ARID domain 3.9999998989515E-4
Pfam IPR001606 EMBL-EBI ARID (AT-rich interaction domain) protein 1.9E-53
Pfam IPR003347 EMBL-EBI Transcription factor jumonji, jmjC 6.0E-61
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 1.8E-17
Pfam IPR001965 EMBL-EBI Zn-finger-like, PHD finger 2.4E-8
Pfam IPR003349 EMBL-EBI Transcription factor jumonji, JmjN 2.1E-25
Pfam IPR004198 EMBL-EBI Zn-finger, C5HC2 type 5.6E-26
Sequence
Target Sequence 
>C. ELEGANS:174562_S_AT
tgaatctcgcttcgggttttttcaccctaatccatttccaccattgactgttttttacaa
tttctaatatccctttgcctcatgttcggtcttaactgaaaaactctgtaaaattctagc
ttttaaaaagttttgttttgttttttcaattaccccttaccatagtgtctcaacctgtca
aaaccttttcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAATCTCGCTTCGGGTTTTTTCAC 63 573 240 Antisense
CCACCATTGACTGTTTTTTACAATT 187 273 277 Antisense
TTTACAATTTCTAATATCCCTTTGC 663 671 293 Antisense
TCATGTTCGGTCTTAACTGAAAAAC 47 621 319 Antisense
TCGGTCTTAACTGAAAAACTCTGTA 134 189 325 Antisense
TTTTCAATTACCCCTTACCATAGTG 516 673 382 Antisense
TCAATTACCCCTTACCATAGTGTCT 669 627 385 Antisense
CTTACCATAGTGTCTCAACCTGTCA 267 219 395 Antisense
ACCATAGTGTCTCAACCTGTCAAAA 686 85 398 Antisense
AGTGTCTCAACCTGTCAAAACCTTT 108 59 403 Antisense
TCTCAACCTGTCAAAACCTTTTCAC 640 609 407 Antisense
Sequence Source Affymetrix Proprietary Database