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[180423_at]

Description F57C9.5 /REP_DB=WormBase Gene ID /WP=CE11330 /TR=O01820 /GB=AAB54188.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 97      4grp_total > 08      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 204
1 2 3 4 range
A 97.3
(-1.3)
A 		53.2
(-3)
A 		135.6
(0.2)
A 		208.7
(3)
P 		156
B 105.3
(-3)
A 		107.4
(-2.8)
A 		112.2
(-2.3)
A 		164.1
(3)
P 		59
C 54.1
(-3)
A 		116.2
(-1.2)
A 		131.9
(-0.7)
P 		257.3
(3)
P 		203
avr 85.6
(-3) 		92.3
(-2.7) 		126.6
(-1) 		210
(3) 		124

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 694
1 2 3 4 5 6 range
A 60
(-3)
A 		61.1
(-3)
A 		82.1
(-2.8)
P 		200.1
(-1.6)
P 		546.1
(2)
P 		643.2
(3)
P 		583
B 29.3
(-3)
A 		75.5
(-2.6)
A 		133.2
(-2.1)
P 		235.3
(-1.1)
P 		542.4
(1.7)
P 		688.3
(3)
P 		659
C 49.7
(-3)
A 		73.6
(-2.8)
P 		110.5
(-2.5)
P 		205.7
(-1.6)
P 		405.8
(0.2)
P 		722.8
(3)
P 		673
avr 46.3
(-3) 		70.1
(-2.8) 		108.6
(-2.4) 		213.7
(-1.4) 		498.1
(1.2) 		684.8
(3) 		639
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 35.4
(3)
A 		11.5
(-3)
A 		35.4
(3)
A 		30.5
(1.8)
P 		24
B 33.6
(2.1)
A 		26.5
(-2.7)
A 		26
(-3)
A 		35
(3)
P 		9
C 17.9
(-3)
A 		33.4
(0.3)
A 		46
(3)
P 		43.4
(2.4)
P 		28
avr 29
(-0.5) 		23.8
(-3) 		35.8
(2.8) 		36.3
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 247
1 2 3 4 5 6 range
A 11.1
(-3)
A 		21.7
(-2.6)
A 		17.9
(-2.7)
P 		50.7
(-1.5)
P 		164.8
(3)
P 		156.6
(2.7)
P 		154
B 10.2
(-3)
A 		25.1
(-2.6)
A 		32.3
(-2.5)
P 		62.3
(-1.7)
P 		220.4
(2.1)
P 		256.7
(3)
P 		247
C 18.4
(-3)
A 		22.5
(-2.9)
P 		28.1
(-2.7)
P 		41.4
(-2.4)
P 		131.3
(0)
P 		242
(3)
P 		224
avr 13.2
(-3) 		23.1
(-2.7) 		26.1
(-2.6) 		51.5
(-1.9) 		172.2
(1.6) 		218.4
(3) 		205
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180423_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.601
Sequence Type Exemplar sequence
Representative Public ID F57C9.5 NCBI
Target Description F57C9.5 /REP_DB=WormBase Gene ID /WP=CE11330 /TR=O01820 /GB=AAB54188.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_059057(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059057 NCBI Caenorhabditis elegans Him-Three Paralog family member (htp-3) (htp-3) mRNA, complete cds. 11/11 None
SNAP00000003848 ENSEMBL cdna:SNAP chromosome:CEL140:I:4821938:4829677:1 11/11 None
GENEFINDER00000003860 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4826858:4829677:1 11/11 None
F57C9.5 ENSEMBL cdna:known chromosome:CEL140:I:4827067:4829769:1 gene:F57C9.5 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
chrI:4827079-4829677(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol htp-3
Ensembl F57C9.5
Entrez Gene 172099 Entrez gene
SwissProt O01820 EMBL-EBI
WormBase CE11330 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB54188 Him-three paralog protein 3 [Caenorhabditis elegans] ref|NP_491458.1| Him-Three Paralog family member (htp-3) [Caenorhabditis elegans] 0.0
blast AAB54189 Hypothetical protein F57C9.6 [Caenorhabditis elegans] ref|NP_491456.2| F57C9.6 [Caenorhabditis elegans] 0.0
blast CAE60353 Hypothetical protein CBG03949 [Caenorhabditis briggsae] 1.0E-160
blast CAE60507 Hypothetical protein CBG04126 [Caenorhabditis briggsae] 5.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR003511 EMBL-EBI DNA-binding HORMA 4.4E-61
Pfam IPR003511 EMBL-EBI DNA-binding HORMA 4.4E-61
Pfam IPR003511 EMBL-EBI DNA-binding HORMA 4.4E-61
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000003848 6 60-82,94-116,144-166,179-201,239-261,297-319
Sequence
Target Sequence 
>C. ELEGANS:180423_AT
cgctgatctgccaactgacgatacagtggaggaagacgttcgtgaaagtcccatctacgg
tcgtgtaccaagtatattggatgtagcaagggctgaggagaacgatgctcaaaatgatgc
tcaagatgctcaaaatgaaattgctgttgagggacttgccgacttatcaattgacaccga
gcagcatgaagaagcagctccaattaatgttactggtcatcaatcggagagcgttccaat
cattgtgacggagcatcagtctgaagaagctcaaacggttgtcacggagcaaccagcagg
agcagcttcagttattgctgcggagagacactacggccgagtttcgagtattctcgatgt
agctggttcgttcgctgacgtagatccatcaggtgccgctccagctattgccacagagag
acactacggccgagtttcgagtattcttgatgtagctggttcgttaagtgacgtagatcc
acaggaagataccgaaagctccactcaaaaccaatcgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCTGATCTGCCAACTGACGATACA 420 255 1632 Antisense
GACGTTCGTGAAAGTCCCATCTACG 230 377 1666 Antisense
TCCCATCTACGGTCGTGTACCAAGT 483 595 1680 Antisense
TGCTGTTGAGGGACTTGCCGACTTA 251 579 1773 Antisense
GTCACGGAGCAACCAGCAGGAGCAG 224 465 1912 Antisense
ATTGCTGCGGAGAGACACTACGGCC 116 3 1945 Antisense
TTCTCGATGTAGCTGGTTCGTTCGC 382 681 1982 Antisense
GTTCGTTCGCTGACGTAGATCCATC 128 443 1997 Antisense
CGCTCCAGCTATTGCCACAGAGAGA 458 255 2028 Antisense
CAGAGAGACACTACGGCCGAGTTTC 442 203 2045 Antisense
AAAGCTCCACTCAAAACCAATCGAC 312 125 2126 Antisense
Sequence Source Affymetrix Proprietary Database