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[193888_s_at] chromatin assembly factor 1 P55 subunit like

Description K07A1.12 /REP_DB=WormBase Gene ID /WP=CE16234 /GEN=rba-2 /TR=SW:P90916 /GB=CAA19477.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=chromatin assembly factor 1 P55 subunit like
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 50      4grp_high_8_8 > 40      6grp_highest_nonorm > 97      6grp_total > 68      4grp_total > 46      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 350
1 2 3 4 range
A 1107.1
(3)
P 		978.2
(-0.8)
P 		905.4
(-3)
P 		1046.8
(1.2)
P 		202
B 1255.7
(3)
P 		1190.1
(1.4)
P 		1118
(-0.4)
P 		1015.5
(-3)
P 		240
C 1193.1
(3)
P 		1002.6
(-3)
P 		1109.7
(0.4)
P 		1022.3
(-2.4)
P 		191
avr 1185.3
(3) 		1057
(-1.9) 		1044.4
(-2.4) 		1028.2
(-3) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1063
1 2 3 4 5 6 range
A 980.5
(-2.5)
P 		918.6
(-3)
P 		1044.8
(-1.9)
P 		1060.6
(-1.8)
P 		995.6
(-2.3)
P 		1605.7
(3)
P 		687
B 982
(-0.9)
P 		661.3
(-3)
P 		845.4
(-1.8)
P 		873.6
(-1.6)
P 		988.7
(-0.9)
P 		1591.7
(3)
P 		930
C 950.9
(-2.5)
P 		881.2
(-3)
P 		910.3
(-2.8)
P 		913.4
(-2.8)
P 		1029.3
(-1.9)
P 		1724.3
(3)
P 		843
avr 971.1
(-1.9) 		820.4
(-3) 		933.5
(-2.2) 		949.2
(-2.1) 		1004.5
(-1.7) 		1640.6
(3) 		820
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 250
1 2 3 4 range
A 403.1
(3)
P 		212.4
(-1.6)
P 		236.7
(-1)
P 		153.2
(-3)
P 		250
B 400.4
(3)
P 		293.9
(-0.5)
P 		259.1
(-1.6)
P 		216.4
(-3)
P 		184
C 395
(3)
P 		288.3
(0.1)
P 		386.8
(2.8)
P 		172.4
(-3)
P 		223
avr 399.5
(3) 		264.9
(-0.7) 		294.2
(0.1) 		180.7
(-3) 		219

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 413
1 2 3 4 5 6 range
A 180.8
(-3)
P 		326.7
(1.2)
P 		227.5
(-1.7)
P 		269
(-0.5)
P 		300.4
(0.4)
P 		390.9
(3)
P 		210
B 341.7
(-0.9)
P 		220.1
(-2.8)
P 		205.3
(-3)
P 		231.4
(-2.6)
P 		401.7
(0)
P 		593.6
(3)
P 		388
C 352.5
(-0.4)
P 		268.9
(-1.7)
P 		231.7
(-2.3)
P 		183.7
(-3)
P 		333.1
(-0.7)
P 		577.2
(3)
P 		394
avr 291.7
(-1.6) 		271.9
(-2) 		221.5
(-3) 		228
(-2.9) 		345.1
(-0.5) 		520.6
(3) 		299
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193888_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1259
Sequence Type Exemplar sequence
Representative Public ID K07A1.12 NCBI
Target Description K07A1.12 /REP_DB=WormBase Gene ID /WP=CE16234 /GEN=rba-2 /TR=SW:P90916 /GB=CAA19477.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=chromatin assembly factor 1 P55 subunit 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_060151(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060151 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-53) (lin-53) mRNA, complete cds. 11/11 A 
SNAP00000041858 ENSEMBL cdna:SNAP chromosome:CEL140:I:9626525:9627669:-1 11/11 None
K07A1.12.1 ENSEMBL cdna:known chromosome:CEL140:I:9626334:9627882:-1 gene:K07A1.12 11/11 None
K07A1.12.2 ENSEMBL cdna:known chromosome:CEL140:I:9626349:9627883:-1 gene:K07A1.12 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
chrI:9626455-9627810(-) 100.0 100.0
Public Domain and Genome References
Gene Title chromatin assembly factor 1 P55 subunit like
Gene Symbol lin-53
Ensembl K07A1.12
Entrez Gene 172802 Entrez gene
SwissProt P90916 EMBL-EBI
WormBase CE16234 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17126_AT WD-40 repeat protein (MSI1) at
ATH1-121501:247821_AT WD-40 repeat protein (MSI1) at
CANINE:1604292_AT similar to retinoblastoma binding protein 4 cfa
CANINE_2:CFA.17920.1.S1_AT similar to retinoblastoma binding protein 4 cfa
CANINE_2:CFAAFFX.16484.1.S1_S_AT similar to retinoblastoma binding protein 4 cfa
DROSOPHILA_2:1626522_AT Chromatin assembly factor 1 subunit dm
DROSGENOME1:154659_AT Chromatin assembly factor 1 subunit dm
CHICKEN:GGA.1029.1.S1_A_AT retinoblastoma binding protein 4 gga
CHICKEN:GGA.1029.2.S1_A_AT retinoblastoma binding protein 4 gga
CHICKEN:GGA.1029.3.S1_A_AT retinoblastoma binding protein 4 gga
CHICKEN:GGA.1029.3.S1_AT Retinoblastoma binding protein 4 gga
HG-U133_PLUS_2:210371_S_AT retinoblastoma binding protein 4 hs
HG-U133A:210371_S_AT retinoblastoma binding protein 4 hs
HG-FOCUS:210371_S_AT retinoblastoma binding protein 4 hs
HG-U133A_2:210371_S_AT retinoblastoma binding protein 4 hs
HG-U95AV2:1318_AT retinoblastoma binding protein 4 hs
HC-G110:1318_AT retinoblastoma binding protein 4 hs
HUGENEFL:X74262_AT retinoblastoma binding protein 4 hs
HG-U133_PLUS_2:217301_X_AT retinoblastoma binding protein 4 hs
HG-U133A_2:217301_X_AT retinoblastoma binding protein 4 hs
HG-U133A:217301_X_AT retinoblastoma binding protein 4 hs
U133_X3P:G13111850_3P_A_AT retinoblastoma binding protein 4 hs
U133_X3P:HS.307104.0.S1_3P_AT retinoblastoma binding protein 4 hs
U133_X3P:HS.16003.3.S1_3P_X_AT retinoblastoma binding protein 4 hs
HG-U133A_2:217015_AT retinoblastoma binding protein 4 hs
HG-U133_PLUS_2:217015_AT retinoblastoma binding protein 4 hs
HG-U133A:217015_AT retinoblastoma binding protein 4 hs
HG-U95AV2:40418_AT retinoblastoma binding protein 4 hs
HU35KSUBB:RC_T98531_AT Retinoblastoma binding protein 4 hs
U133_X3P:HS.173904.0.A1_3P_AT Retinoblastoma binding protein 4 hs
HG-U133_PLUS_2:239071_AT Retinoblastoma binding protein 4 hs
HG-U133B:239071_AT Retinoblastoma binding protein 4 hs
HG-U95B:58923_AT Retinoblastoma binding protein 4 hs
HG-U95C:62219_R_AT Retinoblastoma binding protein 4 hs
HU35KSUBB:RC_T91057_AT Retinoblastoma binding protein 4 hs
U133_X3P:HS.308800.0.A1_3P_AT Retinoblastoma binding protein 4 hs
MOUSE430A_2:1454875_A_AT retinoblastoma binding protein 4 mm
MOE430A:1454875_A_AT retinoblastoma binding protein 4 mm
MOUSE430_2:1454875_A_AT retinoblastoma binding protein 4 mm
MU11KSUBA:U35141_S_AT retinoblastoma binding protein 4 mm
MU11KSUBB:MSA.22098.0_F_AT retinoblastoma binding protein 4 mm
MG-U74AV2:92647_AT retinoblastoma binding protein 4 mm
MOE430A:1454791_A_AT retinoblastoma binding protein 4 mm
MOUSE430A_2:1454791_A_AT retinoblastoma binding protein 4 mm
MOUSE430_2:1454791_A_AT retinoblastoma binding protein 4 mm
MOE430A:1434892_X_AT retinoblastoma binding protein 4 mm
MOUSE430A_2:1434892_X_AT retinoblastoma binding protein 4 mm
MOUSE430_2:1434892_X_AT retinoblastoma binding protein 4 mm
MOE430B:1456260_AT Retinoblastoma binding protein 4 (Rbbp4), mRNA mm
MOUSE430_2:1456260_AT Retinoblastoma binding protein 4 (Rbbp4), mRNA mm
MOE430B:1442443_AT Retinoblastoma binding protein 4 (Rbbp4), mRNA mm
MOUSE430_2:1442443_AT Retinoblastoma binding protein 4 (Rbbp4), mRNA mm
MU11KSUBB:MSA.9431.0_S_AT Retinoblastoma binding protein 4 (Rbbp4), mRNA mm
MU19KSUBA:TC21565_AT Retinoblastoma binding protein 4 (Rbbp4), mRNA mm
RAE230B:1392543_AT retinoblastoma binding protein 4 (predicted) rn
RAT230_2:1392543_AT retinoblastoma binding protein 4 (predicted) rn
RAE230B:1379490_AT Similar to HECT type E3 ubiquitin ligase rn
RAT230_2:1379490_AT Similar to HECT type E3 ubiquitin ligase rn
RG-U34C:RC_AI103439_AT Similar to HECT type E3 ubiquitin ligase rn
Protein Similarities
Method ID Description E-Value
blast CAB03178 Hypothetical protein K07A1.12 [Caenorhabditis elegans] emb|CAA19477.1| Hypothetical protein K07A1.12 [Caenorhabditis elegans] ref|NP_492552.1| abnormal cell LINeage family member (lin-53) [Caenorhabditis elegans] gb|AAD05571.1| synthetic multivulva protein LIN-53 p48 [Caenorhabditis elegans] pir||T23391 hypothetical protein K07A1.12 - Caenorhabditis elegans 0.0
blast CAE60158 Hypothetical protein CBG03710 [Caenorhabditis briggsae] 0.0
blast P90916 Trp-Asp repeats containing protein lin-53 (Abnormal cell lineage protein 53) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.2E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.1E-10
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.5E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.6E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.2E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.1E-10
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.5E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.6E-7
Sequence
Target Sequence 
>C. ELEGANS:193888_S_AT
gatgttgcttggcacgttttgcatgatggtgtcttcggatcggttggtgacgataagaaa
ttgctcatttgggatgtgcgcacaagcactcctggacactgtatcgatgctcattctgcc
gaagttaactgtctcgcattcaatccatattccgaattcattctggccaccggatcagct
gataaaactgtcgctctttgggatctacgtaatctacgaatgaaacttcactcatttgaa
tcacatcgtgatgaaatcttccaagttcagtggagtccacacaacgagactattcttgca
tccagcggtactgataaacgtcttcatgtgtgggacctatctaagattggagaagaccaa
tctgccgaagacgcggaagatggtccaccagagctgttgtttattcacggtgggcacacc
gccaagatcagcgatttctcgtggaacccgaacgagccttgggttgtgtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGTTGCTTGGCACGTTTTGCATG 80 411 691 Antisense
GCATGATGGTGTCTTCGGATCGGTT 445 303 711 Antisense
CAAGCACTCCTGGACACTGTATCGA 552 185 773 Antisense
ACTGTATCGATGCTCATTCTGCCGA 663 97 788 Antisense
TTAACTGTCTCGCATTCAATCCATA 262 685 815 Antisense
TTCCGAATTCATTCTGGCCACCGGA 459 697 840 Antisense
AACTGTCGCTCTTTGGGATCTACGT 340 143 876 Antisense
CTATTCTTGCATCCAGCGGTACTGA 433 221 980 Antisense
GAGCTGTTGTTTATTCACGGTGGGC 148 387 1081 Antisense
CCGCCAAGATCAGCGATTTCTCGTG 652 261 1109 Antisense
CCCGAACGAGCCTTGGGTTGTGTGC 415 257 1137 Antisense
Sequence Source Affymetrix Proprietary Database