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[180438_at]

Description F57C9.6 /REP_DB=WormBase Gene ID /WP=CE11332 /TR=O01818 /GB=AAB54189.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 34      4grp_high_8_8 > 05      6grp_highest_nonorm > 90      6grp_total > 11      4grp_total > 04      6grp_highest_sub > 02      6grp_high1_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 364
1 2 3 4 range
A 136.4
(-0.8)
P 		64.1
(-2.4)
A 		36.6
(-3)
A 		313.7
(3)
P 		277
B 103.2
(-1.4)
P 		54.2
(-2.6)
P 		39.6
(-3)
P 		285.4
(3)
P 		246
C 134.3
(-2)
P 		82
(-2.9)
P 		78.8
(-3)
P 		401
(3)
P 		322
avr 124.6
(-1.4) 		66.8
(-2.7) 		51.7
(-3) 		333.4
(3) 		282

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 88.5
(-1.1)
P 		74.9
(-2.9)
P 		104.7
(1.1)
P 		74.3
(-3)
P 		74.9
(-2.9)
P 		119.2
(3)
P 		45
B 100.1
(-0.7)
P 		159.4
(3)
P 		62.4
(-3)
P 		108.7
(-0.1)
P 		90.7
(-1.2)
P 		62.3
(-3)
P 		97
C 106.2
(0.1)
P 		143.2
(3)
P 		113.8
(0.7)
P 		123.1
(1.4)
P 		66.1
(-3)
P 		76.3
(-2.2)
P 		77
avr 98.3
(-0.4) 		125.8
(3) 		93.6
(-1) 		102
(0.1) 		77.2
(-3) 		85.9
(-1.9) 		49
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 49.7
(3)
P 		13.9
(-2.4)
A 		9.6
(-3)
A 		45.9
(2.4)
P 		40
B 32.9
(-0.2)
P 		13.4
(-2.5)
P 		9.2
(-3)
P 		60.8
(3)
P 		52
C 44.5
(-0.2)
P 		23.6
(-3)
P 		27.5
(-2.5)
P 		67.6
(3)
P 		44
avr 42.4
(0.8) 		17
(-2.8) 		15.4
(-3) 		58.1
(3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 16.3
(-3)
P 		26.6
(1.9)
P 		22.8
(0.1)
P 		18.9
(-1.8)
P 		22.6
(-0)
P 		29
(3)
P 		13
B 34.8
(0.1)
P 		53.1
(3)
P 		15.1
(-3)
P 		28.8
(-0.8)
P 		36.8
(0.4)
P 		23.2
(-1.7)
P 		38
C 39.4
(1.8)
P 		43.7
(3)
P 		29
(-1)
P 		24.8
(-2.1)
P 		21.4
(-3)
P 		25.5
(-1.9)
P 		22
avr 30.2
(-0.5) 		41.1
(3) 		22.3
(-3) 		24.2
(-2.4) 		26.9
(-1.5) 		25.9
(-1.9) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180438_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.394
Sequence Type Exemplar sequence
Representative Public ID F57C9.6 NCBI
Target Description F57C9.6 /REP_DB=WormBase Gene ID /WP=CE11332 /TR=O01818 /GB=AAB54189.1 /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_059055(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059055 NCBI Caenorhabditis elegans F57C9.6 (F57C9.6) mRNA, complete cds. 11/11 None
SNAP00000003848 ENSEMBL cdna:SNAP chromosome:CEL140:I:4821938:4829677:1 11/11 None
GENEFINDER00000003857 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4821986:4824812:1 11/11 None
F57C9.6 ENSEMBL cdna:known chromosome:CEL140:I:4821977:4824812:1 gene:F57C9.6 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
chrI:4821976-4824049(+) 97.84 100.0
Public Domain and Genome References
Gene Title
Ensembl F57C9.6
Entrez Gene 186448 Entrez gene
SwissProt O01818 EMBL-EBI
WormBase CE36651 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB54189 Hypothetical protein F57C9.6 [Caenorhabditis elegans] ref|NP_491456.2| F57C9.6 [Caenorhabditis elegans] 0.0
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 CAE60353 Hypothetical protein CBG03949 [Caenorhabditis briggsae] 1.0E-164
blast CAE60353 Hypothetical protein CBG03949 [Caenorhabditis briggsae] 1.0E-161
blast CAE60353 Hypothetical protein CBG03949 [Caenorhabditis briggsae] 1.0E-160
blast AAA93487 Hypothetical protein F36D4.4 [Caenorhabditis elegans] ref|NP_505436.1| F36D4.4 [Caenorhabditis elegans] 2.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR003511 EMBL-EBI DNA-binding HORMA 4.4E-61
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491456.2 7 47-69,81-103,131-153,166-188,226-248,284-306,326-345
F57C9.6 7 47-69,81-103,131-153,166-188,226-248,284-306,326-345
SNAP00000003848 6 60-82,94-116,144-166,179-201,239-261,297-319
GENEFINDER00000003857 7 44-66,78-100,128-150,163-185,223-245,281-303,323-342
Sequence
Target Sequence 
>C. ELEGANS:180438_AT
gatgccgcgtactctgggcaattgtattgagctggctgctagcattcgtcctcacagtac
tcaatatgttgacgagcacccgacagagaagtgttatgattgacacagaatgtgaaaatg
aaatgatgagtggagcctcgttttgcataaaacatcaggagacgtctttgtcacattatt
tcgtgtttcatatgattctcattgcattttgtcttatatgtcttgcaatcaccgccagct
gctactttattctctttagaataatcacaaaacttgtacgagccgatgtcaaataccaag
ctgaaactgatcttctgaaagaagatcattcacacggaaaatcgattgctcgtcgaaaga
agtacgtgctaatgattggaagtgtcattttggtatattcagtatatctaaccacttatg
cagttattcaaggaatgcatcttgttaatatcactagcagaagcaaaggaattccagttc
atgccagaagtggatacattttcacaaaatacacgtgttatttgttcatctcatttcatt
cactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCCGCGTACTCTGGGCAATTGT 425 413 500 Antisense
ATTGAGCTGGCTGCTAGCATTCGTC 447 3 525 Antisense
TTCGTCCTCACAGTACTCAATATGT 118 695 544 Antisense
AATATGTTGACGAGCACCCGACAGA 499 173 562 Antisense
GATGAGTGGAGCCTCGTTTTGCATA 426 411 624 Antisense
GAGACGTCTTTGTCACATTATTTCG 675 393 658 Antisense
GATTCTCATTGCATTTTGTCTTATA 614 431 693 Antisense
TTATATGTCTTGCAATCACCGCCAG 617 679 713 Antisense
CCAGCTGCTACTTTATTCTCTTTAG 142 273 734 Antisense
GGAATTCCAGTTCATGCCAGAAGTG 430 533 967 Antisense
TTTGTTCATCTCATTTCATTCACTT 403 667 1020 Antisense
Sequence Source Affymetrix Proprietary Database