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[190276_at] hnRNP F protein like

Description ZK1067.6 /REP_DB=WormBase Gene ID /WP=CE06679 /TR=Q22708 /GB=CAA92704.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=hnRNP F protein like
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 60      4grp_high_8_8 > 54      6grp_highest_nonorm > 43      6grp_total > 71      4grp_total > 57      6grp_highest_sub > 04      6grp_cgc > 84      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 824
1 2 3 4 range
A 471.2
(-1.7)
P 		975.9
(2.2)
P 		1082.7
(3)
P 		308.9
(-3)
A 		774
B 530.4
(-1.4)
P 		1130.3
(3)
P 		1031.8
(2.3)
P 		313.6
(-3)
P 		817
C 485.7
(-2.2)
P 		1133.3
(3)
P 		1099.8
(2.7)
P 		391.9
(-3)
P 		741
avr 495.8
(-1.7) 		1079.8
(3) 		1071.4
(2.9) 		338.1
(-3) 		742

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1623
1 2 3 4 5 6 range
A 1061.3
(-0.2)
P 		977.9
(-0.6)
P 		1382.3
(1.2)
P 		1800
(3)
P 		1270.4
(0.7)
P 		427.8
(-3)
P 		1372
B 1169.4
(-0.2)
P 		761.6
(-1.8)
P 		1707.9
(1.9)
P 		2006.7
(3)
P 		1219.3
(-0)
P 		439.2
(-3)
P 		1568
C 1100
(0.6)
P 		763.6
(-1.1)
P 		1578.9
(3)
P 		1546.1
(2.8)
P 		1272.4
(1.5)
P 		384
(-3)
P 		1195
avr 1110.2
(0) 		834.4
(-1.2) 		1556.4
(2) 		1784.3
(3) 		1254
(0.7) 		417
(-3) 		1367
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 338
1 2 3 4 range
A 171.6
(0.2)
P 		211.8
(1.2)
P 		283
(3)
P 		45.2
(-3)
A 		238
B 169.1
(-0.1)
P 		279.2
(3)
P 		239.1
(1.9)
P 		66.8
(-3)
P 		212
C 160.8
(-1.2)
P 		325.8
(1.9)
P 		383.3
(3)
P 		66.1
(-3)
P 		317
avr 167.2
(-0.3) 		272.3
(2.3) 		301.8
(3) 		59.4
(-3) 		242

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 427
1 2 3 4 5 6 range
A 195.6
(-1.4)
P 		347.8
(1.1)
P 		301
(0.4)
P 		456.5
(3)
P 		383.3
(1.8)
P 		104.2
(-3)
P 		352
B 406.9
(1)
P 		253.5
(-1.5)
P 		414.7
(1.1)
P 		531.5
(3)
P 		495.4
(2.4)
P 		163.8
(-3)
P 		368
C 407.7
(2.9)
P 		233
(-0.8)
P 		401.9
(2.8)
P 		310.9
(0.9)
P 		411.7
(3)
P 		128.5
(-3)
P 		283
avr 336.7
(1.1) 		278.1
(-0.1) 		372.5
(1.8) 		433
(3) 		430.1
(2.9) 		132.2
(-3) 		301
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190276_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3422
Sequence Type Exemplar sequence
Representative Public ID ZK1067.6 NCBI
Target Description ZK1067.6 /REP_DB=WormBase Gene ID /WP=CE06679 /TR=Q22708 /GB=CAA92704.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=hnRNP F protein 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_063559(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063559 NCBI Caenorhabditis elegans ZK1067.6 (ZK1067.6) mRNA, complete cds. 11/11 None
SNAP00000032787 ENSEMBL cdna:SNAP chromosome:CEL140:II:9178793:9181048:-1 11/11 None
GENEFINDER00000032793 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9178793:9181065:-1 11/11 None
ZK1067.6 ENSEMBL cdna:known chromosome:CEL140:II:9178424:9188391:-1 gene:ZK1067.6 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
chrII:9178789-9187171(-) 100.0 100.0
Public Domain and Genome References
Gene Title hnRNP F protein like
Gene Symbol sym-2
Ensembl ZK1067.6
Entrez Gene 174461 Entrez gene
SwissProt Q22708 EMBL-EBI
WormBase CE35148 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.14676.1.S1_AT similar to CG8205-PC, isoform C cfa
CANINE_2:CFAAFFX.14683.1.S1_S_AT similar to CG8205-PC, isoform C cfa
DROSOPHILA_2:1632840_S_AT fusilli dm
DROSGENOME1:151545_AT fusilli dm
DROSOPHILA_2:1630930_A_AT fusilli dm
DROSGENOME1:142370_AT fusilli dm
HG-U133_PLUS_2:219121_S_AT RNA binding motif protein 35A hs
HG-U133A:219121_S_AT RNA binding motif protein 35A hs
HG-U133A_2:219121_S_AT RNA binding motif protein 35A hs
HU35KSUBA:RC_AA372018_AT RNA binding motif protein 35A hs
U133_X3P:G8923166_3P_A_AT RNA binding motif protein 35A hs
U133_X3P:HS.24743.1.A1_3P_AT RNA binding motif protein 35A hs
HG-U133_PLUS_2:225846_AT RNA binding motif protein 35A hs
HG-U133B:225846_AT RNA binding motif protein 35A hs
HG-U95B:50391_AT RNA binding motif protein 35A hs
HG-U95D:82072_AT RNA binding motif protein 35A hs
HG-U95E:85874_AT RNA binding motif protein 35A hs
RG-U34B:RC_AA996813_AT similar to hypothetical protein FLJ20171 rn
RAE230B:1383496_AT similar to hypothetical protein FLJ20171 rn
RAT230_2:1383496_AT similar to hypothetical protein FLJ20171 rn
Protein Similarities
Method ID Description E-Value
blast AAO65265 putative RNA binding protein SYM-2 [Caenorhabditis elegans] emb|CAA93887.2| Hypothetical protein ZK1067.6 [Caenorhabditis elegans] emb|CAA92704.2| Hypothetical protein ZK1067.6 [Caenorhabditis elegans] ref|NP_495960.2| ZK1067.6 [Caenorhabditis elegans] 0.0
blast CAE57869 Hypothetical protein CBG00908 [Caenorhabditis briggsae] 0.0
blast AAO65265 putative RNA binding protein SYM-2 [Caenorhabditis elegans] emb|CAA93887.2| Hypothetical protein ZK1067.6 [Caenorhabditis elegans] emb|CAA92704.2| Hypothetical protein ZK1067.6 [Caenorhabditis elegans] ref|NP_495960.2| ZK1067.6 [Caenorhabditis elegans] 1.0E-174
blast AAO65265 putative RNA binding protein SYM-2 [Caenorhabditis elegans] emb|CAA93887.2| Hypothetical protein ZK1067.6 [Caenorhabditis elegans] emb|CAA92704.2| Hypothetical protein ZK1067.6 [Caenorhabditis elegans] ref|NP_495960.2| ZK1067.6 [Caenorhabditis elegans] 1.0E-173
blast CAE57869 Hypothetical protein CBG00908 [Caenorhabditis briggsae] 1.0E-141
blast CAE57869 Hypothetical protein CBG00908 [Caenorhabditis briggsae] 1.0E-140
blast XP_397080 PREDICTED: similar to GA20896-PA [Apis mellifera] 2.0E-84
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-10
Sequence
Target Sequence 
>C. ELEGANS:190276_AT
caatgagcaagcggcttctgcctgcgctgctggagttcacaataactttatgtctgttgg
caaaaagaagagatacatcgaagtattccaagcatctgctgaggagcttaaccttcatca
tctggttggtcaacaacatcaggttccaccaccggctccattgggtttcatggggcagct
gccaccacaggcaccacaaccacaacagttctggtcaagttacccatctccaccaatttc
accaattgtgccagggcaggttacccaattgattatctatggtatccatatgagcatcgg
agttcctgagctggtggctaatttcacaacaccggaacatactgttgataatgtcctatt
cacacgttggccaactcatttgtgtccgggagaagccattttgacgctccgcaatcgtgg
tgctccaccgcctcaaacgagcccattatcacaaatttctcagttatctgctccgaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATGAGCAAGCGGCTTCTGCCTGC 356 181 1320 Antisense
CTGCGCTGCTGGAGTTCACAATAAC 253 237 1341 Antisense
GAGGAGCTTAACCTTCATCATCTGG 135 405 1420 Antisense
CACCGGCTCCATTGGGTTTCATGGG 679 199 1469 Antisense
AGTTCTGGTCAAGTTACCCATCTCC 364 63 1526 Antisense
GTGCCAGGGCAGGTTACCCAATTGA 684 475 1567 Antisense
GCATCGGAGTTCCTGAGCTGGTGGC 296 309 1613 Antisense
TAATGTCCTATTCACACGTTGGCCA 686 631 1668 Antisense
GGAGAAGCCATTTTGACGCTCCGCA 273 519 1708 Antisense
CGCCTCAAACGAGCCCATTATCACA 613 255 1748 Antisense
ATTTCTCAGTTATCTGCTCCGAACT 289 17 1774 Antisense
Sequence Source Affymetrix Proprietary Database