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[174561_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 > 82      6grp_high1_10_10 > 38      4grp_highest_8_8 > 45      4grp_high_8_8 > 01      6grp_highest_nonorm > 70      6grp_total > 37      4grp_total > 15      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 270
1 2 3 4 range
A 366.5
(3)
P 		124.2
(-3)
P 		267.5
(0.5)
P 		347.8
(2.5)
P 		242
B 294.7
(2.1)
P 		222.9
(0.3)
P 		96.5
(-3)
P 		328.2
(3)
P 		232
C 334.4
(2.1)
P 		245.7
(-3)
P 		349.1
(3)
P 		260.3
(-2.2)
P 		103
avr 331.9
(3) 		197.6
(-3) 		237.7
(-1.2) 		312.1
(2.1) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 227
1 2 3 4 5 6 range
A 396.3
(3)
P 		358.7
(2)
P 		180.5
(-3)
P 		321.4
(0.9)
P 		382.2
(2.6)
P 		335.8
(1.3)
P 		216
B 401.4
(3)
P 		307.8
(0.5)
P 		176.6
(-3)
P 		320
(0.8)
P 		212.8
(-2)
P 		322
(0.9)
P 		225
C 331.1
(0.7)
P 		333.2
(0.7)
P 		335.6
(0.8)
P 		403.7
(3)
P 		217.3
(-3)
P 		305.3
(-0.2)
P 		186
avr 376.3
(3) 		333.2
(1.2) 		230.9
(-3) 		348.4
(1.8) 		270.8
(-1.4) 		321
(0.7) 		145
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 111
1 2 3 4 range
A 133.4
(3)
P 		27
(-3)
P 		69.9
(-0.6)
P 		50.9
(-1.7)
P 		106
B 94
(3)
P 		55.1
(-0.3)
P 		22.4
(-3)
P 		69.9
(1)
P 		72
C 110.7
(2.2)
P 		70.6
(-0.9)
P 		121.7
(3)
P 		43.9
(-3)
P 		78
avr 112.7
(3) 		50.9
(-3) 		71.3
(-1) 		54.9
(-2.6) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 73
(-0.7)
P 		127.6
(3)
P 		39.3
(-3)
P 		81.5
(-0.1)
P 		115.3
(2.2)
P 		81.7
(-0.1)
P 		88
B 139.7
(3)
P 		102.4
(0.7)
P 		42.9
(-3)
P 		84.7
(-0.4)
P 		86.5
(-0.3)
P 		120.1
(1.8)
P 		97
C 122.7
(3)
P 		101.7
(0.6)
P 		85.4
(-1.3)
P 		81.2
(-1.8)
P 		70.3
(-3)
P 		102.2
(0.7)
P 		52
avr 111.8
(3) 		110.6
(2.9) 		55.9
(-3) 		82.5
(-0.1) 		90.7
(0.7) 		101.3
(1.9) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174561_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:174561_AT
ccactctctttattctctgtaattccagctactctggattttcatctccatcattttcct
ctttactttaatcgttctcaacactataagctttctcctgaaattcagaaaatgtaccgt
atttcaaaaccaccaaactttaccacagcttctttcctttcattgcattcttcttctttt
catcgcgcaacctttctctctccaaagttttttagtttcctctgttgaatct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACTCTCTTTATTCTCTGTAATTC 237 275 15 Antisense
TTCTCTGTAATTCCAGCTACTCTGG 549 689 27 Antisense
ATTCCAGCTACTCTGGATTTTCATC 355 7 36 Antisense
GGATTTTCATCTCCATCATTTTCCT 672 509 50 Antisense
CCATCATTTTCCTCTTTACTTTAAT 221 267 62 Antisense
TCTTTACTTTAATCGTTCTCAACAC 207 615 74 Antisense
GTTCTCAACACTATAAGCTTTCTCC 386 443 88 Antisense
AACACTATAAGCTTTCTCCTGAAAT 684 135 94 Antisense
ATAAGCTTTCTCCTGAAATTCAGAA 319 25 100 Antisense
ATTCAGAAAATGTACCGTATTTCAA 365 11 117 Antisense
TTTTTTAGTTTCCTCTGTTGAATCT 407 661 222 Antisense
Sequence Source Affymetrix Proprietary Database