[Home] | [Total List]

[182804_at]

Description C49H3.9 /REP_DB=WormBase Gene ID /WP=CE27873 /TR=Q9GYR0 /GB=AAF99896.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 65      4grp_high_8_8 > 07      6grp_total > 67      4grp_total > 0      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 133
1 2 3 4 range
A 273.1
(-0.2)
P 		215.1
(-3)
A 		323.2
(2.1)
P 		341.6
(3)
P 		127
B 213.4
(-2.7)
P 		208.5
(-3)
P 		222
(-2.2)
P 		315.3
(3)
P 		107
C 247.5
(-1)
P 		270.1
(0.7)
P 		220.2
(-3)
P 		301.4
(3)
P 		81
avr 244.7
(-2.1) 		231.2
(-3) 		255.1
(-1.4) 		319.4
(3) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 277
1 2 3 4 5 6 range
A 233.9
(-1.3)
A 		219.5
(-1.7)
A 		295.5
(0.4)
P 		237.9
(-1.2)
M 		175.8
(-3)
A 		385.5
(3)
P 		210
B 243.9
(-2.1)
P 		215.3
(-2.8)
A 		208
(-3)
M 		244.4
(-2.1)
P 		224.9
(-2.6)
P 		442
(3)
P 		234
C 236.4
(1.4)
P 		249.4
(2.2)
P 		165
(-3)
A 		226.8
(0.8)
A 		238.3
(1.6)
P 		261.6
(3)
P 		97
avr 238.1
(-2) 		228.1
(-2.4) 		222.8
(-2.6) 		236.4
(-2.1) 		213
(-3) 		363
(3) 		150
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 99.5
(3)
P 		46.7
(-3)
A 		84.5
(1.3)
P 		50
(-2.6)
P 		53
B 68.1
(3)
P 		51.5
(-3)
P 		51.4
(-3)
P 		67.2
(2.7)
P 		17
C 81.9
(3)
P 		77.7
(2.2)
P 		76.7
(2)
P 		50.8
(-3)
P 		31
avr 83.2
(3) 		58.6
(-2.4) 		70.9
(0.3) 		56
(-3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 123
1 2 3 4 5 6 range
A 43.1
(-3)
A 		78.1
(1.1)
A 		64.4
(-0.5)
P 		60.3
(-1)
M 		53.1
(-1.8)
A 		93.9
(3)
P 		51
B 84.9
(-1.2)
P 		71.7
(-1.9)
A 		50.5
(-3)
M 		64.7
(-2.3)
P 		91.4
(-0.9)
P 		164.8
(3)
P 		114
C 87.6
(3)
P 		76.1
(1.5)
P 		42
(-3)
A 		45.6
(-2.5)
A 		77.1
(1.6)
P 		87.6
(3)
P 		46
avr 71.9
(-1.1) 		75.3
(-0.8) 		52.3
(-3) 		56.9
(-2.6) 		73.9
(-0.9) 		115.4
(3) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182804_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9739
Sequence Type Exemplar sequence
Representative Public ID C49H3.9 NCBI
Target Description C49H3.9 /REP_DB=WormBase Gene ID /WP=CE27873 /TR=Q9GYR0 /GB=AAF99896.2 /SUBMIT=ST.LOUIS /CHR=4 /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_068916(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068916 NCBI Caenorhabditis elegans C49H3.9 (C49H3.9) mRNA, complete cds. 11/11 A 
SNAP00000028667 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7907612:7909433:-1 9/11 None
GENEFINDER00000028684 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7907612:7909716:-1 9/11 None
C49H3.9 ENSEMBL cdna:known chromosome:CEL140:IV:7907076:7909457:-1 gene:C49H3.9 11/11 A 
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:7907396-7909439(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C49H3.9
Entrez Gene 177578 Entrez gene
SwissProt Q9GYR0 EMBL-EBI
WormBase CE27873 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF99896 Hypothetical protein C49H3.9 [Caenorhabditis elegans] ref|NP_501317.1| C49H3.9 [Caenorhabditis elegans] 1.0E-176
blast T34179 hypothetical protein C49H3.9 - Caenorhabditis elegans 1.0E-159
blast CAE70906 Hypothetical protein CBG17703 [Caenorhabditis briggsae] 1.0E-137
Sequence
Target Sequence 
>C. ELEGANS:182804_AT
tcagcacagttctcccgaatatttgtaaagtctcattcaacgtctacaactcatctcttc
aagatattcacgaaaaaatgacgacagctcaccgaacaacctgcaagcttcgatgtggtg
ctccaccattccgaatcgttgagccaacagccaaagaagtaatggatggaattcaacgga
gattgtctgattctaaaaaaattatcgatgaagacttgaaggctgatatcccatcagatg
tgaatcttccgaaaattgaaggagttccagaacaacttatttatgtagcagctcttggat
ggcatgtttcgatgccaaaacgaggatctcttctttttggatgtgacaattgtgccagag
agttagccattaggtgcggaaacaaatttgatccgattcacaatcatgaacgttggtgtc
ctcggattgaaatggatgatcacggggaaccaagttggcaatctgatctcaacactgtcc
tcaacacaaaaaatcatgtgactaaccgattggctccaacccatccaaccagtcatctca
ctctttttgcactttccagggccccaaatctttttcgatcacatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGCACAGTTCTCCCGAATATTTG 33 625 305 Antisense
TAAAGTCTCATTCAACGTCTACAAC 11 575 330 Antisense
CGTCTACAACTCATCTCTTCAAGAT 146 247 345 Antisense
AAAATGACGACAGCTCACCGAACAA 187 133 379 Antisense
TGCAAGCTTCGATGTGGTGCTCCAC 461 575 406 Antisense
CTCCACCATTCCGAATCGTTGAGCC 536 235 425 Antisense
AAGACTTGAAGGCTGATATCCCATC 175 153 515 Antisense
TAGCAGCTCTTGGATGGCATGTTTC 589 651 590 Antisense
GCCAAAACGAGGATCTCTTCTTTTT 203 277 618 Antisense
TGTGACTAACCGATTGGCTCCAACC 673 555 801 Antisense
GCCCCAAATCTTTTTCGATCACATT 694 285 865 Antisense
Sequence Source Affymetrix Proprietary Database