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[173553_s_at]

Description C51959_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C27A7.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C51959 /WB_GENE_ID=C27A7.4 /WP=CE08406 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk225f3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 16      4grp_high_8_8 > 09      6grp_highest_nonorm > 90      6grp_total > 16      4grp_total > 23      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 181
1 2 3 4 range
A 158.8
(2.2)
P 		56.6
(-2.5)
P 		45.7
(-3)
P 		176.1
(3)
P 		130
B 210.1
(3)
P 		58.2
(-2.3)
P 		37.6
(-3)
P 		115.2
(-0.3)
P 		173
C 209
(3)
P 		38.2
(-2.7)
A 		29.2
(-3)
P 		169.6
(1.7)
P 		180
avr 192.6
(3) 		51
(-2.5) 		37.5
(-3) 		153.6
(1.5) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 122.9
(2.5)
P 		110.4
(1.1)
P 		127.8
(3)
P 		84
(-1.7)
P 		71.4
(-3)
P 		102.6
(0.3)
P 		56
B 153.9
(3)
P 		103
(-0.2)
P 		59.4
(-3)
P 		73.8
(-2.1)
P 		85.6
(-1.3)
P 		64.6
(-2.7)
P 		95
C 148.6
(3)
P 		134.8
(2.2)
P 		71.5
(-1.5)
P 		107.7
(0.6)
P 		45.1
(-3)
P 		82.7
(-0.8)
P 		104
avr 141.8
(3) 		116.1
(0.9) 		86.2
(-1.5) 		88.5
(-1.3) 		67.4
(-3) 		83.3
(-1.7) 		74
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 57.8
(3)
P 		12.3
(-2.9)
P 		11.9
(-3)
P 		25.8
(-1.2)
P 		46
B 67
(3)
P 		14.4
(-2.4)
P 		8.7
(-3)
P 		24.6
(-1.4)
P 		58
C 69.2
(3)
P 		11
(-2.9)
A 		10.2
(-3)
P 		28.6
(-1.1)
P 		59
avr 64.7
(3) 		12.6
(-2.7) 		10.3
(-3) 		26.3
(-1.2) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 22.6
(-2.6)
P 		39.3
(3)
P 		27.8
(-0.8)
P 		21.3
(-3)
P 		21.6
(-2.9)
P 		25
(-1.8)
P 		18
B 53.6
(3)
P 		34.3
(0)
P 		14.4
(-3)
P 		19.5
(-2.2)
P 		34.8
(0.1)
P 		24.1
(-1.5)
P 		39
C 55.1
(3)
P 		41.1
(0.9)
P 		18.2
(-2.5)
P 		21.7
(-1.9)
P 		14.6
(-3)
P 		27.7
(-1.1)
P 		41
avr 43.8
(3) 		38.2
(1.6) 		20.1
(-3) 		20.8
(-2.8) 		23.7
(-2.1) 		25.6
(-1.6) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173553_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25316
Sequence Type Exemplar sequence
Representative Public ID C51959 NCBI
Target Description C51959_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C27A7.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C51959 /WB_GENE_ID=C27A7.4 /WP=CE08406 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk225f3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_073646(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073646 NCBI Caenorhabditis elegans abnormal CHEmotaxis family member (che-11) (che-11) mRNA, complete cds. 11/11 None
SNAP00000042923 ENSEMBL cdna:SNAP chromosome:CEL140:V:12146883:12153277:-1 11/11 None
GENEFINDER00000042928 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12146883:12153277:-1 11/11 None
C27A7.4 ENSEMBL cdna:known chromosome:CEL140:V:12146883:12153277:-1 gene:C27A7.4 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
chrV:12146883-12152928(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol che-11
Ensembl C27A7.4
Entrez Gene 179666 Entrez gene
SwissProt P90757 EMBL-EBI
WormBase CE35411 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.16986.1.S1_AT similar to abnormal CHEmotaxis family member (che-11) cfa
CANINE_2:CFAAFFX.29882.1.S1_AT similar to abnormal CHEmotaxis family member (che-11) cfa
CANINE_2:CFAAFFX.29882.1.S1_S_AT similar to abnormal CHEmotaxis family member (che-11) cfa
DROSOPHILA_2:1632552_AT dm
DROSGENOME1:145535_AT dm
CHICKEN:GGA.12032.1.S1_AT similar to KIAA0590 gene product gga
CHICKEN:GGA.12787.1.S1_AT similar to KIAA0590 gene product gga
CHICKEN:GGA.18762.1.S1_AT similar to KIAA0590 gene product gga
CHICKEN:GGA.18762.1.S1_S_AT similar to KIAA0590 gene product gga
CHICKEN:GGAAFFX.22877.1.S1_AT similar to KIAA0590 gene product gga
HG-U133_PLUS_2:204792_S_AT WD and tetratricopeptide repeats 2 hs
HG-U133A:204792_S_AT WD and tetratricopeptide repeats 2 hs
HG-U133A_2:204792_S_AT WD and tetratricopeptide repeats 2 hs
HU35KSUBD:RC_AA477321_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:G7662193_3P_S_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:HS.166909.0.A1_3P_X_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:HS.166909.0.A1_3P_AT WD and tetratricopeptide repeats 2 hs
HG-U133_PLUS_2:244585_AT WD and tetratricopeptide repeats 2 hs
HG-U133B:244585_AT WD and tetratricopeptide repeats 2 hs
HG-U95AV2:37437_AT WD and tetratricopeptide repeats 2 hs
HG-U95D:91809_AT WD and tetratricopeptide repeats 2 hs
HG-U133_PLUS_2:232844_AT WD and tetratricopeptide repeats 2 hs
HG-U133B:232844_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:HS.186969.0.S1_3P_AT WD and tetratricopeptide repeats 2 hs
HG-U133_PLUS_2:237004_AT WD and tetratricopeptide repeats 2 hs
HG-U133B:237004_AT WD and tetratricopeptide repeats 2 hs
HG-U133_PLUS_2:237674_AT WD and tetratricopeptide repeats 2 hs
HG-U133B:237674_AT WD and tetratricopeptide repeats 2 hs
HG-U133_PLUS_2:241299_AT WD and tetratricopeptide repeats 2 hs
HG-U133B:241299_AT WD and tetratricopeptide repeats 2 hs
HG-U95E:67621_AT WD and tetratricopeptide repeats 2 hs
HG-U95D:68604_R_AT WD and tetratricopeptide repeats 2 hs
HG-U95D:69111_AT WD and tetratricopeptide repeats 2 hs
HG-U95E:84441_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:HS.201711.0.A1_3P_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:HS.168427.0.A1_3P_AT WD and tetratricopeptide repeats 2 hs
U133_X3P:HS.271044.0.A1_3P_AT WD and tetratricopeptide repeats 2 hs
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
42073 intraflagellar transport inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02787 Hypothetical protein C27A7.4 [Caenorhabditis elegans] ref|NP_506047.3| abnormal CHEmotaxis family member (che-11) [Caenorhabditis elegans] 0.0
blast CAE75402 Hypothetical protein CBG23392 [Caenorhabditis briggsae] 0.0
blast XP_592506 PREDICTED: similar to CG11838-PB, isoform B isoform 1 [Bos taurus] 0.0
Sequence
Target Sequence 
>C. ELEGANS:173553_S_AT
tctggcagccaatttcttacaaacgactgattggcaagataatcagcagacaatgaaaga
tatcgaaacattttatacaaaatcacaatcttttgaacatcttggaaatttctacaaatc
agttgcaatgattgaagccgaacatttgagaactcttgataaatcgatgggagctttgga
aatggcggcagtttgtgttctggaagcagaacaaaaaaatatgtccacgactggacttga
tgcattgaaagaggatttgaaaaaatatgtagttcaactgaggaaactgcaggtaatgaa
aaacgatgcagcggatggaatgcgtcaattaacaactcttgcagaagaatcaattgatga
tgatattgtcccgtgtacacgactttttgctcttataattgaagatcatgcctctcggaa
gaattggaaacctgcgtacagagcaattacaggattacaaaagaaagtaccaaatgttga
tttggaaactttcgtagagacatccacat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTGGCAGCCAATTTCTTACAAACG 66 605 3307 Antisense
GGGAGCTTTGGAAATGGCGGCAGTT 280 495 3475 Antisense
GGCGGCAGTTTGTGTTCTGGAAGCA 40 541 3490 Antisense
TCCACGACTGGACTTGATGCATTGA 324 589 3530 Antisense
GATGCAGCGGATGGAATGCGTCAAT 442 413 3611 Antisense
ATGCGTCAATTAACAACTCTTGCAG 30 43 3626 Antisense
GATGATATTGTCCCGTGTACACGAC 319 411 3665 Antisense
GTGTACACGACTTTTTGCTCTTATA 246 487 3679 Antisense
GAAGATCATGCCTCTCGGAAGAATT 480 337 3707 Antisense
GGAAACCTGCGTACAGAGCAATTAC 279 527 3732 Antisense
GAAACTTTCGTAGAGACATCCACAT 71 357 3791 Antisense
Sequence Source Affymetrix Proprietary Database