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[173227_at]

Description C55248_rc /REP_DB=TREMBL Accession /GB=C55248 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk405c3 : 3prime end, single read.
Cluster 6grp_total > 85      4grp_total > 61      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 250
1 2 3 4 range
A 322.4
(2.7)
P 		289
(1.8)
A 		331.7
(3)
A 		124.3
(-3)
M 		207
B 373.8
(3)
P 		211
(-1)
A 		279.5
(0.7)
A 		127.7
(-3)
P 		246
C 350.1
(3)
P 		263.7
(-0.7)
A 		339.2
(2.5)
P 		209
(-3)
P 		141
avr 348.8
(3) 		254.6
(0.1) 		316.8
(2) 		153.7
(-3) 		195

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 274.6
(-0.9)
A 		303.6
(1.6)
A 		249.3
(-3)
A 		305.7
(1.7)
A 		306.3
(1.8)
P 		320.7
(3)
P 		71
B 220.4
(-2.5)
A 		212.9
(-3)
A 		225.9
(-2.1)
A 		241.2
(-1.1)
P 		268.7
(0.7)
P 		304.6
(3)
P 		92
C 249.5
(-0.7)
P 		213.5
(-3)
A 		300.4
(2.5)
A 		308.4
(3)
P 		289.3
(1.8)
P 		271.1
(0.6)
P 		95
avr 248.2
(-2.5) 		243.3
(-3) 		258.5
(-1.4) 		285.1
(1.5) 		288.1
(1.8) 		298.8
(3) 		56
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 101
1 2 3 4 range
A 117.4
(3)
P 		62.7
(-0.3)
A 		86.7
(1.1)
A 		18.2
(-3)
M 		99
B 119.2
(3)
P 		52.1
(-1.4)
A 		64.8
(-0.5)
A 		27.2
(-3)
P 		92
C 115.9
(2.8)
P 		75.8
(-0.1)
A 		118.2
(3)
P 		35.2
(-3)
P 		83
avr 117.5
(3) 		63.5
(-0.6) 		89.9
(1.2) 		26.9
(-3) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 50.6
(-3)
A 		108
(3)
A 		54.3
(-2.6)
A 		77.5
(-0.2)
A 		92.4
(1.4)
P 		78.1
(-0.1)
P 		57
B 76.7
(-0.8)
A 		70.9
(-1.4)
A 		54.9
(-3)
A 		63.9
(-2.1)
P 		109.2
(2.6)
P 		113.6
(3)
P 		59
C 92.5
(2.8)
P 		65.2
(-2.4)
A 		76.4
(-0.3)
A 		62
(-3)
P 		93.6
(3)
P 		90.8
(2.5)
P 		32
avr 73.3
(-1.1) 		81.4
(0.2) 		61.9
(-3) 		67.8
(-2) 		98.4
(3) 		94.2
(2.3) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173227_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27820
Sequence Type Exemplar sequence
Representative Public ID C55248 NCBI
Target Description C55248_rc /REP_DB=TREMBL Accession /GB=C55248 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk405c3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_065010(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065010 NCBI Caenorhabditis elegans Y82E9BR.18 (Y82E9BR.18) mRNA, complete cds. 11/11 None
GENEFINDER00000008929 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1467530:1479124:-1 10/11 None
SNAP00000008922 ENSEMBL cdna:SNAP chromosome:CEL140:III:1468054:1480855:-1 10/11 None
Y82E9BR.18 ENSEMBL cdna:known chromosome:CEL140:III:1467863:1483497:-1 gene:Y82E9BR.18 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
chrIII:1468038-1469261(-) 57.96 57.96
Public Domain and Genome References
Gene Title
Ensembl Y82E9BR.18
Entrez Gene 175303 Entrez gene
SwissProt Q9BKR5 EMBL-EBI
WormBase CE33002 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248583_AT zinc knuckle (CCHC-type) family protein at
CANINE_2:CFAAFFX.21941.1.S1_AT similar to serologically defined colon cancer antigen 1 cfa
DROSOPHILA_2:1623888_AT dm
DROSGENOME1:150553_AT dm
CHICKEN:GGA.6115.1.S1_AT similar to serologically defined colon cancer antigen 1 isoform a gga
HG-U95AV2:39228_AT serologically defined colon cancer antigen 1 hs
HG-U133_PLUS_2:218649_X_AT serologically defined colon cancer antigen 1 hs
HG-U133A:218649_X_AT serologically defined colon cancer antigen 1 hs
HG-FOCUS:218649_X_AT serologically defined colon cancer antigen 1 hs
HG-U133A_2:218649_X_AT serologically defined colon cancer antigen 1 hs
HU35KSUBA:HUM_ALU_AT serologically defined colon cancer antigen 1 hs
HU35KSUBB:HUM_ALU_AT serologically defined colon cancer antigen 1 hs
HU35KSUBC:HUM_ALU_AT serologically defined colon cancer antigen 1 hs
HU35KSUBD:HUM_ALU_AT serologically defined colon cancer antigen 1 hs
HUGENEFL:HUM_ALU_AT serologically defined colon cancer antigen 1 hs
HC-G110:HUM_ALU_AT serologically defined colon cancer antigen 1 hs
HU35KSUBC:RC_N93137_AT serologically defined colon cancer antigen 1 hs
HU35KSUBC:RC_AA159181_AT serologically defined colon cancer antigen 1 hs
HU35KSUBD:RC_T83979_AT serologically defined colon cancer antigen 1 hs
U133_X3P:G4759077_3P_AT serologically defined colon cancer antigen 1 hs
U133_X3P:HS2.406369.2.S1_3P_A_AT serologically defined colon cancer antigen 1 hs
U133_X3P:HS2.406369.1.S1_3P_AT serologically defined colon cancer antigen 1 hs
U133_X3P:HS2.397366.1.S1_3P_S_AT serologically defined colon cancer antigen 1 hs
HG-U133_PLUS_2:1557950_AT serologically defined colon cancer antigen 1 hs
HG-U133_PLUS_2:1558675_S_AT serologically defined colon cancer antigen 1 hs
HG-U133_PLUS_2:1569594_A_AT serologically defined colon cancer antigen 1 hs
HG-U95B:43093_AT serologically defined colon cancer antigen 1 hs
HG-U95C:62202_AT serologically defined colon cancer antigen 1 hs
HG-U95AV2:39229_AT Serologically defined colon cancer antigen 1 hs
HG-U95D:69611_AT Serologically defined colon cancer antigen 1 hs
HG-U95D:75079_F_AT Serologically defined colon cancer antigen 1 hs
HG-U95E:81400_R_AT Serologically defined colon cancer antigen 1 hs
HG-U95E:83498_AT Serologically defined colon cancer antigen 1 hs
HG-U95D:90817_AT Serologically defined colon cancer antigen 1 hs
HU35KSUBC:RC_AA054554_AT Serologically defined colon cancer antigen 1 hs
MOUSE430_2:1425697_AT serologically defined colon cancer antigen 1 mm
MOUSE430A_2:1425697_AT serologically defined colon cancer antigen 1 mm
MOE430A:1425697_AT serologically defined colon cancer antigen 1 mm
MG-U74BV2:112164_AT serologically defined colon cancer antigen 1 mm
MG-U74CV2:166007_AT serologically defined colon cancer antigen 1 mm
MOE430B:1429327_AT serologically defined colon cancer antigen 1 mm
MOUSE430_2:1429327_AT serologically defined colon cancer antigen 1 mm
MOE430B:1429446_AT serologically defined colon cancer antigen 1 mm
MOUSE430_2:1429446_AT serologically defined colon cancer antigen 1 mm
MG-U74BV2:109126_AT Serologically defined colon cancer antigen 1 (Sdccag1), transcript variant 1, mRNA mm
MOE430B:1435020_AT Serologically defined colon cancer antigen 1 (Sdccag1), transcript variant 1, mRNA mm
MOUSE430_2:1435020_AT Serologically defined colon cancer antigen 1 (Sdccag1), transcript variant 1, mRNA mm
MU19KSUBA:TC24181_AT Serologically defined colon cancer antigen 1 (Sdccag1), transcript variant 1, mRNA mm
MU19KSUBA:TC25443_AT Serologically defined colon cancer antigen 1 (Sdccag1), transcript variant 1, mRNA mm
MU19KSUBC:TC41298_AT Serologically defined colon cancer antigen 1 (Sdccag1), transcript variant 1, mRNA mm
RAE230B:1396116_AT serologically defined colon cancer antigen 1 (predicted) rn
RAT230_2:1396116_AT serologically defined colon cancer antigen 1 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6614 SRP-dependent cotranslational protein targeting to membrane inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5786 signal recognition particle (sensu Eukaryota) inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
5525 GTP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK26157 Hypothetical protein Y82E9BR.18 [Caenorhabditis elegans] ref|NP_497411.2| Y82E9BR.18 [Caenorhabditis elegans] 0.0
blast CAE66447 Hypothetical protein CBG11722 [Caenorhabditis briggsae] 0.0
blast XP_395865 PREDICTED: similar to ENSANGP00000010817 [Apis mellifera] 1.0E-168
Protein Domains
Database ID Description E-Value
Pfam IPR008532 EMBL-EBI Protein of unknown function DUF814 3.6E-12
Pfam IPR008532 EMBL-EBI Protein of unknown function DUF814 4.9E-34
Pfam IPR008532 EMBL-EBI Protein of unknown function DUF814 1.9E-53
Pfam IPR008532 EMBL-EBI Protein of unknown function DUF814 1.9E-53
Sequence
Target Sequence 
>C. ELEGANS:173227_AT
ctcagccacttgacgaggacacactgctctttgcagttcccgtcgttgcgccatattcgg
cactctcaacgtacaaatatcgcgtcaaaatcactccgggtatcggaaaacgtggaaaag
ctacgaaatcggcgattgagctctttacgcgtcaacgtacggatcgccaggcggcattaa
tcaaatcactgttatcagatgactcagcatcacgaaatnttccaacaaaagtccgaatct
cggcaccacagcttcacgctaaatagt

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCAGCCACTTGACGAGGACACACT 197 225 19 Antisense
AGGACACACTGCTCTTTGCAGTTCC 213 55 34 Antisense
CATATTCGGCACTCTCAACGTACAA 346 213 70 Antisense
TATCGCGTCAAAATCACTCCGGGTA 239 657 96 Antisense
GAAATCGGCGATTGAGCTCTTTACG 503 361 143 Antisense
AGCTCTTTACGCGTCAACGTACGGA 69 81 157 Antisense
AACGTACGGATCGCCAGGCGGCATT 457 141 172 Antisense
AGGCGGCATTAATCAAATCACTGTT 487 49 187 Antisense
GTTATCAGATGACTCAGCATCACGA 357 447 209 Antisense
CAAAAGTCCGAATCTCGGCACCACA 348 187 244 Antisense
GCACCACAGCTTCACGCTAAATAGT 519 313 261 Antisense
Sequence Source Affymetrix Proprietary Database