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[173454_at]

Description g217299 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=F42A6.7 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=F42A6.7 /WP=CE17059 /CHR=4 /FEA=Genomic Cluster /GEN=rbp-1 /DEF=hnRNP like protein; RNA-binding protein
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 29      4grp_highest_8_8 > 20      4grp_high_8_8 > 31      6grp_highest_nonorm > 57      6grp_total > 27      4grp_total > 32      6grp_highest_sub > Cu      6grp_cgc > 04      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1475
1 2 3 4 range
A 2519.3
(-2.6)
P 		2431.4
(-3)
P 		3449.5
(1.9)
P 		3671.6
(3)
P 		1240
B 2197.1
(-3)
P 		3179.9
(2.5)
P 		3260.6
(3)
P 		3069.6
(1.9)
P 		1064
C 2385.4
(-3)
P 		2429.5
(-2.5)
P 		2826.4
(2)
P 		2917.8
(3)
P 		532
avr 2367.3
(-3) 		2680.3
(-0.8) 		3178.8
(2.7) 		3219.7
(3) 		852

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1935
1 2 3 4 5 6 range
A 3332.8
(2.1)
P 		3141.2
(1.3)
P 		2206.4
(-3)
P 		2453.3
(-1.9)
P 		2545.2
(-1.5)
P 		3525.5
(3)
P 		1319
B 3489
(3)
P 		2822.4
(0.9)
P 		1590.6
(-3)
P 		2361.7
(-0.6)
P 		2158
(-1.2)
P 		2928.5
(1.2)
P 		1898
C 3031.6
(3)
P 		2947.6
(2.5)
P 		2750.4
(1.5)
P 		1962.1
(-2.9)
P 		2543.9
(0.3)
P 		1942.4
(-3)
P 		1089
avr 3284.5
(3) 		2970.4
(1.3) 		2182.5
(-3) 		2259
(-2.6) 		2415.7
(-1.7) 		2798.8
(0.4) 		1102
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 493
1 2 3 4 range
A 917.3
(3)
P 		527.8
(-3)
P 		901.8
(2.8)
P 		537.4
(-2.9)
P 		390
B 700.6
(-0.9)
P 		785.4
(3)
P 		755.6
(1.6)
P 		654.1
(-3)
P 		131
C 789.6
(0.6)
P 		698.5
(-0.5)
P 		985.1
(3)
P 		492
(-3)
P 		493
avr 802.5
(1.5) 		670.6
(-0.9) 		880.8
(3) 		561.2
(-3) 		320

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 828
1 2 3 4 5 6 range
A 614.4
(-1.7)
P 		1117.2
(3)
P 		480.5
(-3)
P 		622.2
(-1.7)
P 		768
(-0.3)
P 		858.4
(0.6)
P 		637
B 1214
(3)
P 		939.5
(1)
P 		386.2
(-3)
P 		625.5
(-1.3)
P 		876.8
(0.6)
P 		1092
(2.1)
P 		828
C 1123.7
(3)
P 		899.4
(1.2)
P 		700
(-0.5)
P 		394.6
(-3)
P 		823.2
(0.5)
P 		650.2
(-0.9)
P 		729
avr 984
(3) 		985.4
(3) 		522.2
(-3) 		547.4
(-2.7) 		822.7
(0.9) 		866.9
(1.5) 		463
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173454_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24879
Sequence Type Exemplar sequence
Representative Public ID 217299 NCBI
Target Description g217299 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=F42A6.7 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=F42A6.7 /WP=CE17059 /CHR=4 /FEA=Genomic Cluster /GEN=rbp-1 /DEF=hnRNP like protein; RNA-binding protein
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_067925(11), NM_001028028(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067925 NCBI Caenorhabditis elegans human HnRNP A1 homolog family member (hrp-1) (hrp-1) mRNA, complete cds. 11/11 A 
NM_001028028 NCBI Caenorhabditis elegans human HnRNP A1 homolog family member (hrp-1) (hrp-1) mRNA, complete cds. 11/11 None
F42A6.7a.1 ENSEMBL cdna:known chromosome:CEL140:IV:3336916:3338542:-1 gene:F42A6.7 11/11 A 
F42A6.7a.2 ENSEMBL cdna:known chromosome:CEL140:IV:3336923:3338540:-1 gene:F42A6.7 11/11 A 
F42A6.7b.2 ENSEMBL cdna:known chromosome:CEL140:IV:3336935:3338859:-1 gene:F42A6.7 11/11 A 
F42A6.7b.1 ENSEMBL cdna:known chromosome:CEL140:IV:3336935:3338859:-1 gene:F42A6.7 11/11 A 
F42A6.7b.3 ENSEMBL cdna:known chromosome:CEL140:IV:3336959:3338829:-1 gene:F42A6.7 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:3336957-3338408(-) 100.0 100.0
Public Domain and Genome References
Ensembl F42A6.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB92051 Human hnrnp a1 homolog protein 1, isoform a [Caenorhabditis elegans] ref|NP_500326.2| human HnRNP A1 homolog family member (hrp-1) [Caenorhabditis elegans] sp|Q22037|ROA1_CAEEL Heterogeneous nuclear ribonucleoprotein A1 dbj|BAA01645.1| hnRNP like protein [Caenorhabditis elegans] 1.0E-115
blast CAE61460 Hypothetical protein CBG05352 [Caenorhabditis briggsae] 1.0E-101
blast AAB92051 Human hnrnp a1 homolog protein 1, isoform a [Caenorhabditis elegans] ref|NP_500326.2| human HnRNP A1 homolog family member (hrp-1) [Caenorhabditis elegans] sp|Q22037|ROA1_CAEEL Heterogeneous nuclear ribonucleoprotein A1 dbj|BAA01645.1| hnRNP like protein [Caenorhabditis elegans] 6.0E-93
blast AAL02515 Human hnrnp a1 homolog protein 1, isoform b [Caenorhabditis elegans] ref|NP_001023199.1| human HnRNP A1 homolog family member (hrp-1) [Caenorhabditis elegans] 6.0E-93
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 8.5E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.0E-19
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.6E-12
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.0E-19
Sequence
Target Sequence 
>C. ELEGANS:173454_AT
taattccttaagcccctctaagtgtccaacgtgtctgagcttcccgtgctctctcctctg
tatcgatcttctcaaccatttttgctctgctatctcatcaaaatcttctgtactttttct
tgttgcctttctccagaaagtttcgtttattattcaattttttaccctgtcttttttata
taatttatttctaaattcgcacagttgacatccattca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAATTCCTTAAGCCCCTCTAAGTGT 360 633 1057 Antisense
TAAGTGTCCAACGTGTCTGAGCTTC 211 637 1075 Antisense
ATCGATCTTCTCAACCATTTTTGCT 10 37 1118 Antisense
TCTCAACCATTTTTGCTCTGCTATC 567 613 1126 Antisense
CTCTGCTATCTCATCAAAATCTTCT 573 231 1141 Antisense
CAAAATCTTCTGTACTTTTTCTTGT 524 189 1155 Antisense
TTTTCTTGTTGCCTTTCTCCAGAAA 231 677 1171 Antisense
GTTGCCTTTCTCCAGAAAGTTTCGT 9 439 1178 Antisense
TATTATTCAATTTTTTACCCTGTCT 412 663 1204 Antisense
TTATTTCTAAATTCGCACAGTTGAC 319 679 1241 Antisense
AATTCGCACAGTTGACATCCATTCA 380 177 1250 Antisense
Sequence Source GenBank