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[192043_s_at]

Description F42A6.7 /REP_DB=WormBase Gene ID /WP=CE17059 /GEN=rbp-1 /TR=Q22037 /GB=AAB92051.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=RNA-binding protein
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 37      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 0      6grp_total > 36      4grp_total > 49      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 878
1 2 3 4 range
A 1704.2
(-3)
P 		2122.5
(3)
P 		2111.8
(2.8)
P 		1905.1
(-0.1)
P 		418
B 1703.5
(-3)
P 		2125.7
(2.6)
P 		2154.8
(3)
P 		2044.2
(1.5)
P 		451
C 1500
(-2.9)
P 		2357.1
(3)
P 		2277.9
(2.5)
P 		1479.2
(-3)
P 		878
avr 1635.9
(-3) 		2201.8
(3) 		2181.5
(2.8) 		1809.5
(-1.2) 		566

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1297
1 2 3 4 5 6 range
A 1776.2
(2.8)
P 		1744.7
(2.5)
P 		1452.6
(-0.3)
P 		1332.3
(-1.5)
P 		1169.3
(-3)
P 		1800.8
(3)
P 		632
B 2208.4
(3)
P 		1620.1
(-0.5)
P 		1548.5
(-0.9)
P 		1358.4
(-2)
P 		1196.1
(-3)
P 		1828.3
(0.7)
P 		1012
C 2137.9
(3)
P 		1594.6
(0.3)
P 		1662
(0.7)
P 		911.6
(-3)
P 		1440.9
(-0.4)
P 		1415.6
(-0.5)
P 		1226
avr 2040.8
(3) 		1653.1
(0.2) 		1554.4
(-0.5) 		1200.8
(-3) 		1268.8
(-2.5) 		1681.6
(0.4) 		840
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 545
1 2 3 4 range
A 620.5
(3)
P 		460.7
(0.2)
P 		552.1
(1.8)
P 		278.9
(-3)
P 		342
B 543.2
(3)
P 		525
(2)
P 		499.3
(0.6)
P 		435.6
(-3)
P 		108
C 496.5
(-0.3)
P 		677.7
(1.7)
P 		793.9
(3)
P 		249.4
(-3)
P 		545
avr 553.4
(1.7) 		554.5
(1.8) 		615.1
(3) 		321.3
(-3) 		294

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 609
1 2 3 4 5 6 range
A 327.4
(-2.8)
P 		620.5
(3)
P 		316.3
(-3)
P 		337.9
(-2.6)
P 		352.8
(-2.3)
P 		438.4
(-0.6)
P 		304
B 768.4
(3)
P 		539.3
(-0.4)
P 		376
(-2.8)
P 		359.8
(-3)
P 		485.9
(-1.1)
P 		681.7
(1.7)
P 		409
C 792.4
(3)
P 		486.6
(-0)
P 		423
(-0.6)
P 		183.3
(-3)
P 		466.2
(-0.2)
P 		473.9
(-0.1)
P 		609
avr 629.4
(3) 		548.8
(1.6) 		371.8
(-1.6) 		293.7
(-3) 		435
(-0.5) 		531.3
(1.2) 		336
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192043_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11088
Sequence Type Exemplar sequence
Representative Public ID F42A6.7 NCBI
Target Description F42A6.7 /REP_DB=WormBase Gene ID /WP=CE17059 /GEN=rbp-1 /TR=Q22037 /GB=AAB92051.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=RNA-binding protein
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_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
SNAP00000037845 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3337229:3338401:-1 11/11 None
GENEFINDER00000037858 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3337229:3338401:-1 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 
F42A6.7a.3 ENSEMBL cdna:known chromosome:CEL140:IV:3337229:3338829:-1 gene:F42A6.7 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
chrIV:3337234-3338407(-) 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
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:192043_S_AT
attattctcgacaaagccacccaaaagccaagaggcttcggattcgtcaccttcgatgat
catgactctgtggatcaatgcgttcttcaaaaatcccatatggtcaacggacacagatgt
gacgtgcgcaaaggactctccaaggacgagatgagcaaggctcagatgaaccgcgatcgt
gaaacccgtggcggaagatctcgcgatggacagcgtggcggttacaatggcggtggtggt
ggcggcggcggctggggaggaccagctcaacgcggcggtccaggagcatatggtggacca
ggaggtggcggccaaggaggatatggcggagattacggcggtggctggggacagcaagga
ggcggcggtcaaggcggatggggaggcccacaacagcagcaaggaggtggtggctgggga
cagcaaggcggcggcggtcaaggcggatggggaggaccacagcaacagcagcaaggaggc
tggggaggtcctcaacaaggaggcggcggcggtggctggggaggccaaggccagcagcaa
ggcggctggggaggtcaatccggtgctcagcagtgggct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTATTCTCGACAAAGCCACCCAAA 355 13 445 Antisense
CCAAGAGGCTTCGGATTCGTCACCT 636 275 472 Antisense
GATTCGTCACCTTCGATGATCATGA 166 431 485 Antisense
GACTCTGTGGATCAATGCGTTCTTC 110 375 508 Antisense
GATGTGACGTGCGCAAAGGACTCTC 330 409 560 Antisense
GGCTCAGATGAACCGCGATCGTGAA 472 539 603 Antisense
GAAACCCGTGGCGGAAGATCTCGCG 104 359 625 Antisense
GATCTCGCGATGGACAGCGTGGCGG 252 417 641 Antisense
AGCGTGGCGGTTACAATGGCGGTGG 498 81 656 Antisense
GGATGGGGAGGCCCACAACAGCAGC 610 511 820 Antisense
TCAATCCGGTGCTCAGCAGTGGGCT 525 633 999 Antisense
Sequence Source Affymetrix Proprietary Database