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[193569_at]

Description D2089.4 /REP_DB=WormBase Gene ID /WP=CE23621 /GEN=ptb-1 /TR=Q18999 /GB=CAA85411.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=polypyrimidine tract binding protein
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 06      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 70      6grp_total > 06      4grp_total > 38      6grp_highest_sub > De      6grp_cgc > 21      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 429
1 2 3 4 range
A 574.3
(3)
P 		306.8
(-1.2)
P 		189.5
(-3)
P 		346.4
(-0.6)
P 		385
B 489.8
(3)
P 		279.2
(-0.7)
P 		145.4
(-3)
P 		270.3
(-0.8)
P 		344
C 499.1
(3)
P 		292.9
(-1.1)
P 		195.9
(-3)
P 		370.6
(0.5)
P 		303
avr 521.1
(3) 		293
(-1) 		176.9
(-3) 		329.1
(-0.3) 		344

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 368
1 2 3 4 5 6 range
A 494
(3)
P 		361.2
(0.8)
P 		163.8
(-2.4)
P 		149.9
(-2.6)
P 		125.7
(-3)
P 		187.4
(-2)
P 		368
B 405.2
(3)
P 		206
(-1.8)
P 		248.7
(-0.7)
P 		215.9
(-1.5)
P 		153.7
(-3)
P 		211.3
(-1.6)
P 		252
C 477.4
(3)
P 		334.8
(0.5)
P 		382.5
(1.3)
P 		174.7
(-2.3)
P 		206.4
(-1.8)
P 		137.5
(-3)
P 		340
avr 458.9
(3) 		300.7
(-0.2) 		265
(-0.9) 		180.2
(-2.6) 		161.9
(-3) 		178.7
(-2.7) 		297
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 175
1 2 3 4 range
A 209.1
(3)
P 		66.6
(-2.4)
P 		49.5
(-3)
P 		50.7
(-3)
P 		160
B 156.2
(3)
P 		68.9
(-1.3)
P 		33.7
(-3)
P 		57.6
(-1.8)
P 		123
C 165.2
(3)
P 		84.2
(-1.7)
P 		68.3
(-2.7)
P 		62.5
(-3)
P 		103
avr 176.8
(3) 		73.2
(-1.9) 		50.5
(-3) 		56.9
(-2.7) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 91.1
(0.6)
P 		128.5
(3)
P 		35.7
(-3)
P 		38
(-2.9)
P 		37.9
(-2.9)
P 		45.6
(-2.4)
P 		93
B 141
(3)
P 		68.6
(-2.2)
P 		60.4
(-2.8)
P 		57.2
(-3)
P 		62.5
(-2.6)
P 		78.8
(-1.5)
P 		84
C 176.9
(3)
P 		102.1
(-0.2)
P 		97.3
(-0.4)
P 		35.1
(-3)
P 		66.8
(-1.7)
P 		46
(-2.5)
P 		142
avr 136.3
(3) 		99.7
(0.6) 		64.5
(-1.6) 		43.4
(-3) 		55.7
(-2.2) 		56.8
(-2.1) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193569_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3461
Sequence Type Exemplar sequence
Representative Public ID D2089.4 NCBI
Target Description D2089.4 /REP_DB=WormBase Gene ID /WP=CE23621 /GEN=ptb-1 /TR=Q18999 /GB=CAA85411.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=polypyrimidine tract 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_171035(11), NM_171036(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171035 NCBI Caenorhabditis elegans human PTB (hnRNP) homolog family member (ptb-1) (ptb-1) mRNA, complete cds. 11/11 None
NM_171036 NCBI Caenorhabditis elegans human PTB (hnRNP) homolog family member (ptb-1) (ptb-1) mRNA, complete cds. 11/11 None
D2089.4a ENSEMBL cdna:known chromosome:CEL140:II:10675513:10690182:1 gene:D2089.4 11/11 None
D2089.4b.2 ENSEMBL cdna:known chromosome:CEL140:II:10686235:10689701:1 gene:D2089.4 11/11 None
D2089.4b.1 ENSEMBL cdna:known chromosome:CEL140:II:10686266:10689701:1 gene:D2089.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043966 8/11 Cross Hyb Matching Probes None
GENEFINDER00000043968 2/11 Cross Hyb Matching Probes None
GENEFINDER00000043969 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:10677495-10689698(+) 99.61 99.61
Public Domain and Genome References
Ensembl D2089.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA85411 Hypothetical protein D2089.4a [Caenorhabditis elegans] ref|NP_741041.1| human PTB (hnRNP) homolog family member (ptb-1) [Caenorhabditis elegans] 0.0
blast CAE59624 Hypothetical protein CBG03033 [Caenorhabditis briggsae] 0.0
blast CAD30435 Hypothetical protein D2089.4b [Caenorhabditis elegans] ref|NP_741042.1| human PTB (hnRNP) homolog family member (ptb-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.2E-8
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.0E-8
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.0E-8
Sequence
Target Sequence 
>C. ELEGANS:193569_AT
tcaatttcatccatgcgattcccgatgatcaatttgacaccggtcatcctggtttccaat
cttcatgagatgaaagtcaccacggatgccctcttcaccctttttggggtctacggagat
gtgatgcgagtcaagatactgtacaacaagaaggacaacgcgttgatccagtattcggag
ccacaacaagcacagctagctctgacccatttggacaaagtaaaatggcatgatcgcctg
atccgtgtcgctccatccaagcacacaaatgttcaaatgccaaaggaaggacaaccagat
gcaggattgactcgtgactacgctcactcgacacttcatcgcttcaagaagcccggttca
aagaactatttgaacatttatccgccatgtgcaacacttcatctttcgaacattcccaca
agtgttagcgaggagaagcttaaagagatgtttgcggaggcgggatttgctgtaaaggct
tttaaattctttccaaaagaccataaaatggcactttgtcagctagaagacatcgagacg
gcgatcgatgctctcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAATTTCATCCATGCGATTCCCGA 13 635 1165 Antisense
ATTTGACACCGGTCATCCTGGTTTC 464 17 1196 Antisense
AGATGAAAGTCACCACGGATGCCCT 94 67 1232 Antisense
GACAACGCGTTGATCCAGTATTCGG 516 365 1318 Antisense
CAACAAGCACAGCTAGCTCTGACCC 324 189 1348 Antisense
AAATGGCATGATCGCCTGATCCGTG 174 119 1387 Antisense
GATGCAGGATTGACTCGTGACTACG 693 411 1462 Antisense
ACTCGACACTTCATCGCTTCAAGAA 528 99 1490 Antisense
TTATCCGCCATGTGCAACACTTCAT 301 681 1542 Antisense
ACACTTCATCTTTCGAACATTCCCA 528 109 1558 Antisense
TCGAGACGGCGATCGATGCTCTCAT 667 601 1697 Antisense
Sequence Source Affymetrix Proprietary Database