[Home] | [Total List]

[174613_at]

Description CEK033B3R_rc /REP_DB=TREMBL Accession /GB=D33584 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk33b3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 34      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 80      6grp_total > 0      4grp_total > 49      6grp_highest_sub > 02      6grp_total_sub > Hat      6grp_cgc > 53      6grp_high1_sub > 02      6grp_cgc_sub > 02      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 373
1 2 3 4 range
A 73.7
(-3)
P 		300.1
(1.9)
P 		351.3
(3)
P 		224.5
(0.3)
P 		278
B 94.6
(-2.8)
P 		443
(3)
P 		337.7
(1.2)
P 		84.5
(-3)
P 		359
C 70.2
(-3)
P 		419.7
(3)
P 		420.1
(3)
P 		168.8
(-1.3)
P 		350
avr 79.5
(-3) 		387.6
(3) 		369.7
(2.7) 		159.3
(-1.4) 		308

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 339
1 2 3 4 5 6 range
A 148.7
(-2.5)
P 		458.5
(3)
P 		143.4
(-2.6)
P 		234.4
(-1)
P 		233.5
(-1)
P 		119.5
(-3)
P 		339
B 178.9
(-1.3)
P 		313.5
(3)
P 		126.9
(-3)
P 		227.6
(0.2)
P 		181
(-1.3)
P 		153.2
(-2.2)
P 		187
C 168.5
(-2.2)
P 		380.6
(3)
P 		135.7
(-3)
P 		200.4
(-1.4)
P 		203.3
(-1.3)
P 		142.1
(-2.8)
P 		245
avr 165.4
(-2.3) 		384.2
(3) 		135.3
(-3) 		220.8
(-0.9) 		205.9
(-1.3) 		138.3
(-2.9) 		249
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 128
1 2 3 4 range
A 26.8
(-3)
P 		65.1
(0.5)
P 		91.8
(3)
P 		32.9
(-2.4)
P 		65
B 30.2
(-2.2)
P 		109.4
(3)
P 		78.3
(1)
P 		18
(-3)
P 		91
C 23.2
(-3)
P 		120.7
(1.7)
P 		146.4
(3)
P 		28.5
(-2.7)
P 		123
avr 26.7
(-3) 		98.4
(2.5) 		105.5
(3) 		26.5
(-3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 136
1 2 3 4 5 6 range
A 27.4
(-3)
P 		163.1
(3)
P 		31.2
(-2.8)
P 		59.4
(-1.6)
P 		70.5
(-1.1)
P 		29.1
(-2.9)
P 		136
B 62.2
(-0.4)
P 		104.3
(3)
P 		30.8
(-3)
P 		60.3
(-0.6)
P 		73.6
(0.5)
P 		57.1
(-0.9)
P 		74
C 62.5
(-0.9)
P 		116.1
(3)
P 		34.5
(-3)
P 		40.3
(-2.6)
P 		65.8
(-0.7)
P 		47.6
(-2)
P 		82
avr 50.7
(-1.8) 		127.8
(3) 		32.2
(-3) 		53.3
(-1.7) 		70
(-0.6) 		44.6
(-2.2) 		96
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174613_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21363
Sequence Type Exemplar sequence
Representative Public ID CEK033B3R NCBI
Target Description CEK033B3R_rc /REP_DB=TREMBL Accession /GB=D33584 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk33b3 : 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_069086(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069086 NCBI Caenorhabditis elegans CaDHerin family member (cdh-5) (cdh-5) mRNA, complete cds. 11/11 None
F08B4.2b ENSEMBL cdna:known chromosome:CEL140:IV:8669124:8676524:1 gene:F08B4.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000041283 3/11 Cross Hyb Matching Probes None
GENEFINDER00000041294 3/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177671 2 1 NM_069085 192569_at (11)
NM_069086 174613_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8676165-8676579(+) 100.0 100.0
Public Domain and Genome References
Ensembl F08B4.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL02476 Cadherin family protein 5, isoform b [Caenorhabditis elegans] ref|NP_501487.1| CaDHerin family member (cdh-5) [Caenorhabditis elegans] 0.0
blast AAB37728 Cadherin family protein 5, isoform a [Caenorhabditis elegans] ref|NP_501486.1| CaDHerin family member (cdh-5) [Caenorhabditis elegans] 0.0
blast CAE56701 Hypothetical protein CBG24486 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002126 EMBL-EBI Cadherin 7.5E-10
Pfam IPR002126 EMBL-EBI Cadherin 5.2E-8
Pfam IPR002126 EMBL-EBI Cadherin 3.1E-8
Pfam IPR002126 EMBL-EBI Cadherin 1.4E-18
Pfam IPR002126 EMBL-EBI Cadherin 1.1E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501487.1 1 1127-1149
F08B4.2b 1 1127-1149
Sequence
Target Sequence 
>C. ELEGANS:174613_AT
gacaatcgtgattccaacaccagattatcatcaacgaacacatccaaatcaacataaatc
aatactttaatcaattaaaattcaaaatattatttttgttaaaacttctatctttcaaag
aatctcatgttcctcaatttctccccattttctttcagcattttcactttttcattcatt
tcgctcaatttgttcatcaactccttgtgacgtcccaatataggtgctcaaaatgtctaa
tttatatcaattttctcaccttcattctttttctctctcattcatccacatttgccagtg
atttgtgttcaccccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAATCGTGATTCCAACACCAGAT 327 365 14 Antisense
AACACCAGATTATCATCAACGAACA 187 135 29 Antisense
TCAACGAACACATCCAAATCAACAT 533 631 44 Antisense
AGAATCTCATGTTCCTCAATTTCTC 612 75 132 Antisense
CCCATTTTCTTTCAGCATTTTCACT 253 259 157 Antisense
CACTTTTTCATTCATTTCGCTCAAT 359 197 178 Antisense
CATTCATTTCGCTCAATTTGTTCAT 111 217 186 Antisense
GTGACGTCCCAATATAGGTGCTCAA 199 483 220 Antisense
TATATCAATTTTCTCACCTTCATTC 509 661 256 Antisense
TCTCATTCATCCACATTTGCCAGTG 386 613 289 Antisense
TTGCCAGTGATTTGTGTTCACCCCG 12 703 305 Antisense
Sequence Source Affymetrix Proprietary Database