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[175064_at]

Description AV199062 /REP_DB=TREMBL Accession /GB=AV199062 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk539g8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 07      4grp_highest_8_8 > 03      4grp_high_8_8 > 45      6grp_highest_nonorm > 80      6grp_total > 05      4grp_total > 42      6grp_highest_sub > De      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 152
1 2 3 4 range
A 209.4
(-3)
P 		251.5
(1.9)
P 		213.2
(-2.6)
P 		260.5
(3)
P 		51
B 177.5
(-3)
P 		316
(3)
P 		273.8
(1.2)
P 		190.3
(-2.4)
P 		139
C 189.5
(-2.5)
P 		328.5
(3)
P 		276.1
(0.9)
P 		176.8
(-3)
P 		152
avr 192.1
(-3) 		298.7
(3) 		254.4
(0.5) 		209.2
(-2) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 279
1 2 3 4 5 6 range
A 401.8
(3)
P 		214.7
(-1.1)
P 		194
(-1.6)
P 		212.3
(-1.2)
P 		278.1
(0.3)
P 		130.1
(-3)
P 		272
B 331.8
(3)
P 		236.8
(0.3)
P 		122.6
(-3)
P 		212.2
(-0.4)
P 		200.4
(-0.8)
P 		152
(-2.2)
P 		209
C 234.8
(0.6)
P 		284
(3)
P 		229.5
(0.4)
P 		227.6
(0.3)
P 		158.9
(-3)
P 		201.8
(-0.9)
P 		125
avr 322.8
(3) 		245.2
(0.1) 		182
(-2.2) 		217.4
(-0.9) 		212.5
(-1.1) 		161.3
(-3) 		162
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 76.2
(3)
P 		54.6
(-0.4)
P 		55.7
(-0.2)
P 		38.1
(-3)
P 		38
B 56.6
(-0.4)
P 		78
(3)
P 		63.4
(0.7)
P 		40.6
(-3)
P 		37
C 62.7
(-0)
P 		94.4
(2.8)
P 		96.2
(3)
P 		29.8
(-3)
P 		66
avr 65.2
(1.4) 		75.7
(3) 		71.8
(2.4) 		36.2
(-3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 86
1 2 3 4 5 6 range
A 74.1
(1.9)
P 		76.4
(2.1)
P 		42.3
(-1.8)
P 		53.8
(-0.5)
P 		83.9
(3)
P 		31.7
(-3)
P 		52
B 115.5
(3)
P 		78.8
(0.4)
P 		29.8
(-3)
P 		56.2
(-1.2)
P 		81.4
(0.6)
P 		56.7
(-1.1)
P 		86
C 87
(3)
P 		86.7
(3)
P 		58.4
(-1.2)
P 		45.8
(-3)
P 		51.4
(-2.2)
P 		67.6
(0.2)
P 		41
avr 92.2
(3) 		80.6
(1.6) 		43.5
(-3) 		51.9
(-2) 		72.2
(0.5) 		52
(-2) 		49
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175064_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21597
Sequence Type Exemplar sequence
Representative Public ID AV199062 NCBI
Target Description AV199062 /REP_DB=TREMBL Accession /GB=AV199062 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk539g8 : 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_001028279(11), NM_001028278(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028279 NCBI Caenorhabditis elegans Y38C1AA.5b (Y38C1AA.5) mRNA, complete cds. 11/11 None
NM_001028278 NCBI Caenorhabditis elegans Y38C1AA.5a (Y38C1AA.5) mRNA, complete cds. 10/11 None
SNAP00000038643 ENSEMBL cdna:SNAP chromosome:CEL140:IV:166520:169864:1 10/11 None
GENEFINDER00000038662 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:165842:169864:1 10/11 None
Y38C1AA.5a ENSEMBL cdna:known chromosome:CEL140:IV:165125:169864:1 gene:Y38C1AA.5 10/11 None
Y38C1AA.5b ENSEMBL cdna:known chromosome:CEL140:IV:165125:169950:1 gene:Y38C1AA.5 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:169115-169906(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y38C1AA.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAU05550 Hypothetical protein Y38C1AA.5b [Caenorhabditis elegans] ref|NP_001023450.1| Y38C1AA.5b [Caenorhabditis elegans] 0.0
blast AAF59467 Hypothetical protein Y38C1AA.5a [Caenorhabditis elegans] ref|NP_001023449.1| Y38C1AA.5a [Caenorhabditis elegans] 0.0
blast CAE58508 Hypothetical protein CBG01658 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.4E-6
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.2E-13
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 4.0E-4
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.2E-13
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.2E-13
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.4E-6
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.2E-13
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023450.1 1 570-592
NP_001023449.1 1 568-590
Y38C1AA.5a 1 568-590
Y38C1AA.5b 1 570-592
SNAP00000038643 1 474-496
GENEFINDER00000038662 1 536-558
Sequence
Target Sequence 
>C. ELEGANS:175064_AT
aaaactgaacagctctcaacgtcccctgaaacctgctccgaagaaaaacatctctacatt
gtggttattactgttcttcttgtctccgtaacaatatcacttgtctccaacctttatcag
tttatcagagcacaatataaacgataggttcttcaactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAACTGAACAGCTCTCAACGTCCC 625 129 112 Antisense
TGCTCCGAAGAAAAACATCTCTACA 678 579 145 Antisense
AACATCTCTACATTGTGGTTATTAC 540 137 158 Antisense
TGGTTATTACTGTTCTTCTTGTCTC 478 551 173 Antisense
TGTTCTTCTTGTCTCCGTAACAATA 456 561 183 Antisense
TTCTTGTCTCCGTAACAATATCACT 510 687 188 Antisense
ACAATATCACTTGTCTCCAACCTTT 390 115 202 Antisense
ACTTGTCTCCAACCTTTATCAGTTT 113 105 210 Antisense
GTCTCCAACCTTTATCAGTTTATCA 488 471 214 Antisense
CCTTTATCAGTTTATCAGAGCACAA 399 269 222 Antisense
ATATAAACGATAGGTTCTTCAACTT 332 17 246 Antisense
Sequence Source Affymetrix Proprietary Database