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[173863_s_at] Nucleolin

Description AV190003 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=ZK1236.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV190003 /WB_GENE_ID=ZK1236.2 /WP=CE00380 /CHR=3 /FEA=Genomic Cluster /GEN=cec-1 /DEF=Nucleolin; Caenorhabditis elegans cDNA clone:yk565f2 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 20      4grp_highest_8_8 > 49      4grp_high_8_8 > 42      6grp_highest_nonorm > 52      6grp_total > 42      4grp_total > 54      6grp_cgc > 71      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 635
1 2 3 4 range
A 778.2
(2.4)
P 		801.3
(3)
P 		635.2
(-1.3)
P 		571.7
(-3)
P 		230
B 808.3
(3)
P 		718.9
(1)
P 		535.3
(-3)
P 		597
(-1.6)
P 		273
C 1111.1
(3)
P 		661.9
(-1.2)
P 		684.3
(-1)
P 		476.2
(-3)
P 		635
avr 899.2
(3) 		727.4
(0.1) 		618.3
(-1.8) 		548.3
(-3) 		351

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 656
1 2 3 4 5 6 range
A 527.6
(-1.3)
P 		773.1
(1)
P 		906.2
(2.2)
P 		993.5
(3)
P 		337.5
(-3)
P 		407.7
(-2.4)
P 		656
B 864.3
(2.9)
P 		580.7
(-1)
P 		871.1
(3)
P 		512.9
(-2)
P 		440.7
(-3)
P 		485.7
(-2.4)
P 		430
C 743.3
(3)
P 		620.7
(0.7)
P 		740.2
(2.9)
P 		447.3
(-2.5)
P 		430.7
(-2.8)
P 		422.2
(-3)
P 		321
avr 711.7
(1.2) 		658.2
(0.5) 		839.2
(3) 		651.2
(0.4) 		403
(-3) 		438.5
(-2.5) 		436
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 288
1 2 3 4 range
A 283.3
(3)
P 		173.9
(-0.3)
P 		166.1
(-0.5)
P 		83.7
(-3)
P 		200
B 257.8
(3)
P 		177.5
(-0.6)
P 		124
(-3)
P 		127.2
(-2.9)
P 		134
C 367.8
(3)
P 		190.3
(-0.7)
P 		238.5
(0.3)
P 		80.3
(-3)
P 		288
avr 303
(3) 		180.6
(-0.6) 		176.2
(-0.7) 		97.1
(-3) 		206

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 211
1 2 3 4 5 6 range
A 97.3
(-3)
P 		274.9
(3)
P 		197.3
(0.4)
P 		252
(2.2)
P 		101.8
(-2.8)
P 		99.3
(-2.9)
P 		178
B 300.7
(3)
P 		193.3
(-0.9)
P 		211.5
(-0.2)
P 		135.8
(-3)
P 		179.1
(-1.4)
P 		181.1
(-1.4)
P 		165
C 275.5
(3)
P 		189.4
(0.2)
P 		188.4
(0.2)
P 		89.9
(-3)
P 		139.4
(-1.4)
P 		141.3
(-1.3)
P 		186
avr 224.5
(3) 		219.2
(2.6) 		199.1
(1.2) 		159.2
(-1.6) 		140.1
(-3) 		140.6
(-3) 		84
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173863_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24125
Sequence Type Exemplar sequence
Representative Public ID AV190003 NCBI
Target Description AV190003 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=ZK1236.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV190003 /WB_GENE_ID=ZK1236.2 /WP=CE00380 /CHR=3 /FEA=Genomic Cluster /GEN=cec-1 /DEF=Nucleolin; Caenorhabditis elegans cDNA clone:yk565f2 : 5prime 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_066461(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066461 NCBI Caenorhabditis elegans ZK1236.2 (Nucleolin) mRNA, complete cds. 11/11 None
SNAP00000024907 ENSEMBL cdna:SNAP chromosome:CEL140:III:8426253:8428178:1 11/11 None
GENEFINDER00000024924 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8426253:8428178:1 11/11 None
ZK1236.2 ENSEMBL cdna:known chromosome:CEL140:III:8426252:8428496:1 gene:ZK1236.2 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
chrIII:8426249-8428175(+) 72.13 100.0
Public Domain and Genome References
Gene Title Nucleolin
Gene Symbol cec-1
Ensembl ZK1236.2
Entrez Gene 176190 Entrez gene
SwissProt P34618 EMBL-EBI
WormBase CE00380 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6333 chromatin assembly or disassembly inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
785 chromatin inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3682 chromatin binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA28192 C.elegans chromodomain protein protein 1 [Caenorhabditis elegans] ref|NP_498862.1| ZK1236.2 [Caenorhabditis elegans] sp|P34618|CEC1_CAEEL Chromo domain protein cec-1 6.0E-33
blast CAE71258 Hypothetical protein CBG18138 [Caenorhabditis briggsae] 2.0E-23
blast CAE68217 Hypothetical protein CBG13888 [Caenorhabditis briggsae] 2.0E-10
Protein Domains
Database ID Description E-Value
Pfam IPR000953 EMBL-EBI Chromo 1.2E-24
Sequence
Target Sequence 
>C. ELEGANS:173863_S_AT
aaatccccaccaaagaggcagagactagcaggaggtgatatccgaccagatagtgatacg
gatgaagaacattcttcagctgataagaaatcaaaagcagaggatgaagaagaagttgaa
gatgatgaggagccagtgccaaagaaaaagaaggaggttcaagaagaacctgaagaagaa
gagtctgtagaaggagaagatgaggaagaatcccaagaggttgaggatttgaaggaagat
gaaaaaatggaagaagacgagaaagaagaagaggaggacgtacaattagaatcagagaaa
aacgagaaagaagaagaagaggaaaaggtggaggaaaagaaagaagaggaagaggaagaa
gaggaggaagagattcaattggttattgtagagaagacggtcattgagactacggtagtg
gaaccagctgtagctactcccgagccatccgagccatcgtcttctgagaaggctgtagta
gaaaatggatcttcttctgctgctgcaggaaattctgcttcaaaaccagaagtttctgcc
gtagaagtcgtcacagttgaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATCCCCACCAAAGAGGCAGAGAC 498 117 336 Antisense
GAGGCAGAGACTAGCAGGAGGTGAT 64 401 350 Antisense
AGCAGGAGGTGATATCCGACCAGAT 298 77 362 Antisense
ATGAGGAGCCAGTGCCAAAGAAAAA 207 43 460 Antisense
GAGGAAGAATCCCAAGAGGTTGAGG 480 403 537 Antisense
AGAGAAGACGGTCATTGAGACTACG 553 59 725 Antisense
AGTGGAACCAGCTGTAGCTACTCCC 422 59 752 Antisense
CCGAGCCATCGTCTTCTGAGAAGGC 45 265 784 Antisense
CAGGAAATTCTGCTTCAAAACCAGA 101 207 841 Antisense
GAAGTTTCTGCCGTAGAAGTCGTCA 64 337 864 Antisense
GCCGTAGAAGTCGTCACAGTTGAAG 77 285 873 Antisense
Sequence Source Affymetrix Proprietary Database