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[189188_at] EGF-like domain

Description C49C3.4 /REP_DB=WormBase Gene ID /WP=CE19743 /TR=Q9XUF9 /GB=CAB05159.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=EGF-like domain
Cluster 6grp_highest_10_10 > 16      6grp_high1_10_10 > 51      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 35      6grp_total > 51      4grp_total > 60      6grp_highest_sub > 03_04      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4011
1 2 3 4 range
A 3332.9
(1.7)
P 		3478.7
(2)
P 		4002.8
(3)
P 		924.9
(-3)
P 		3078
B 3552.6
(1.1)
P 		3753.7
(1.4)
P 		4778.4
(3)
P 		925.3
(-3)
P 		3853
C 3600.2
(2.1)
P 		3452.8
(1.9)
P 		4076.6
(3)
P 		767.8
(-3)
P 		3309
avr 3495.2
(1.6) 		3561.7
(1.7) 		4285.9
(3) 		872.7
(-3) 		3413

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1806
1 2 3 4 5 6 range
A 3566.7
(0.9)
P 		4007.5
(3)
P 		3782.7
(1.9)
P 		3806.6
(2)
P 		3801
(2)
P 		2752.2
(-3)
P 		1255
B 3617.6
(-0.1)
P 		3399.1
(-0.8)
P 		4550.9
(3)
P 		4334.7
(2.3)
P 		2905.9
(-2.5)
P 		2745.4
(-3)
P 		1806
C 3114.7
(-2.2)
P 		3306.4
(-1.4)
P 		4328.4
(3)
P 		4329.5
(3)
P 		3520.2
(-0.5)
P 		2925
(-3)
P 		1405
avr 3433
(-0.3) 		3571
(0.2) 		4220.7
(3) 		4156.9
(2.7) 		3409
(-0.4) 		2807.5
(-3) 		1413
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1291
1 2 3 4 range
A 1213.5
(3)
P 		755.1
(0.4)
P 		1046.4
(2.1)
P 		135.4
(-3)
P 		1078
B 1132.9
(3)
P 		927.1
(1.7)
P 		1107.3
(2.8)
P 		197.2
(-3)
P 		936
C 1191.8
(1.9)
P 		992.7
(1)
P 		1420.8
(3)
P 		129.5
(-3)
P 		1291
avr 1179.4
(2.9) 		891.6
(1.3) 		1191.5
(3) 		154
(-3) 		1038

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 768
1 2 3 4 5 6 range
A 657.5
(-3)
P 		1425.3
(3)
P 		823.8
(-1.7)
P 		965.4
(-0.6)
P 		1147
(0.8)
P 		670.1
(-2.9)
P 		768
B 1258.8
(3)
P 		1131.4
(-0.3)
P 		1105.1
(-0.9)
P 		1148.1
(0.2)
P 		1180.6
(1)
P 		1023.7
(-3)
P 		235
C 1154.5
(3)
P 		1008.9
(-0.1)
P 		1101.6
(1.9)
P 		870.7
(-3)
P 		1139.1
(2.7)
P 		979.2
(-0.7)
P 		284
avr 1023.6
(-0.3) 		1188.5
(3) 		1010.2
(-0.6) 		994.7
(-0.9) 		1155.6
(2.3) 		891
(-3) 		298
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189188_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8477
Sequence Type Exemplar sequence
Representative Public ID C49C3.4 NCBI
Target Description C49C3.4 /REP_DB=WormBase Gene ID /WP=CE19743 /TR=Q9XUF9 /GB=CAB05159.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=EGF-like domain
Cluster Evidence This cluster is supported by a 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_070679(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070679 NCBI Caenorhabditis elegans C49C3.4 (C49C3.4) mRNA, complete cds. 11/11 None
SNAP00000040194 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17321789:17328588:1 11/11 None
GENEFINDER00000040211 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17320753:17328588:1 11/11 None
C49C3.4 ENSEMBL cdna:known chromosome:CEL140:IV:17320750:17328616:1 gene:C49C3.4 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
chrIV:17320758-17328594(+) 96.21 100.0
Public Domain and Genome References
Gene Title EGF-like domain
Ensembl C49C3.4
Entrez Gene 178513 Entrez gene
SwissProt Q9XUF9 EMBL-EBI
WormBase CE19743 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05159 Hypothetical protein C49C3.4 [Caenorhabditis elegans] ref|NP_503080.1| C49C3.4 [Caenorhabditis elegans] 0.0
blast CAE57481 Hypothetical protein CBG00449 [Caenorhabditis briggsae] 0.0
blast CAE57417 Hypothetical protein CBG00374 [Caenorhabditis briggsae] 2.0E-78
Sequence
Target Sequence 
>C. ELEGANS:189188_AT
cgacagaggggcgttctacgttgccgtttacttactagatgacccattaattccaaaagt
gcagataatttcggatcttgatcgtgatagttcaaatgcggtatctacatcatcatcgga
taccagaaccatgctcacattcaatatccctgaagagtatgatattgtagctaactcagg
ggatggaggtgtaacaagaaacgcacaaagaaatggttgcacatttgattggacagccta
cagtgtcttcgcaacacaaaagtacacacctggcctcaatattgccaagattactcttca
agatgcttcttcaaacacttacaccagattcttcccatttggaacatcttccgctccagt
ttgccaaaacggtggtacacctatccaatcggatggatcatgtctatgcccatctggatt
c

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGACAGAGGGGCGTTCTACGTTGCC 63 247 4167 Antisense
TACGTTGCCGTTTACTTACTAGATG 172 649 4183 Antisense
AATGCGGTATCTACATCATCATCGG 48 167 4261 Antisense
CATCGGATACCAGAACCATGCTCAC 643 211 4280 Antisense
CCATGCTCACATTCAATATCCCTGA 351 271 4295 Antisense
GGTTGCACATTTGATTGGACAGCCT 437 507 4381 Antisense
TGGACAGCCTACAGTGTCTTCGCAA 45 549 4396 Antisense
AAAGTACACACCTGGCCTCAATATT 215 123 4425 Antisense
GATGCTTCTTCAAACACTTACACCA 479 413 4468 Antisense
TCCGCTCCAGTTTGCCAAAACGGTG 567 595 4516 Antisense
ATCATGTCTATGCCCATCTGGATTC 406 29 4563 Antisense
Sequence Source Affymetrix Proprietary Database