[Home] | [Total List]

[176720_at]

Description C30B5.2 /REP_DB=WormBase Gene ID /WP=CE27101 /GB=AAK31472.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 99      4grp_highest_8_8 > 62      4grp_high_8_8 > 18      6grp_highest_nonorm > 74      6grp_total > 95      4grp_total > 29      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 364
1 2 3 4 range
A 707.1
(3)
P 		696.2
(2.5)
P 		566.4
(-3)
P 		593.1
(-1.9)
P 		141
B 843.3
(3)
P 		479.5
(-3)
P 		505.7
(-2.6)
P 		836.9
(2.9)
P 		364
C 758
(1.4)
P 		769.5
(1.8)
P 		613.5
(-3)
P 		808.5
(3)
P 		195
avr 769.5
(3) 		648.4
(-0.5) 		561.9
(-3) 		746.2
(2.3) 		208

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 559
1 2 3 4 5 6 range
A 693
(-0.6)
P 		618.5
(-1.8)
P 		540.1
(-3)
P 		671.3
(-0.9)
P 		907.4
(2.9)
P 		916.6
(3)
P 		377
B 552.1
(-2)
P 		457.2
(-3)
P 		468.7
(-2.9)
P 		681.4
(-0.6)
P 		1015.9
(3)
P 		662.7
(-0.8)
P 		559
C 665.6
(0.4)
P 		502.2
(-3)
P 		533.2
(-2.4)
P 		722.9
(1.5)
P 		734.9
(1.8)
P 		793.9
(3)
P 		292
avr 636.9
(-1) 		526
(-2.8) 		514
(-3) 		691.9
(-0.1) 		886.1
(3) 		791.1
(1.5) 		372
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 182
1 2 3 4 range
A 257.5
(3)
P 		151.1
(-0.7)
P 		148.1
(-0.8)
P 		86.8
(-3)
P 		171
B 268.9
(3)
P 		118.4
(-3)
P 		117.2
(-3)
P 		178.3
(-0.6)
P 		152
C 250.9
(3)
P 		221.2
(1.4)
P 		213.8
(1.1)
P 		136.3
(-3)
P 		115
avr 259.1
(3) 		163.6
(-1.6) 		159.7
(-1.8) 		133.8
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 299
1 2 3 4 5 6 range
A 127.8
(-2.6)
P 		220
(0.9)
P 		117.6
(-3)
P 		170.2
(-1)
P 		273.8
(3)
P 		223.2
(1.1)
P 		156
B 192.1
(-1.4)
P 		152.2
(-2.2)
P 		113.8
(-3)
P 		180.5
(-1.7)
P 		412.7
(3)
P 		247.1
(-0.3)
P 		299
C 246.7
(2.1)
P 		153.2
(-2.2)
P 		135.7
(-3)
P 		145.4
(-2.6)
P 		237.8
(1.7)
P 		265.8
(3)
P 		130
avr 188.9
(-0.9) 		175.1
(-1.3) 		122.4
(-3) 		165.4
(-1.6) 		308.1
(3) 		245.4
(1) 		186
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176720_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5340
Sequence Type Exemplar sequence
Representative Public ID C30B5.2 NCBI
Target Description C30B5.2 /REP_DB=WormBase Gene ID /WP=CE27101 /GB=AAK31472.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_062837(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062837 NCBI Caenorhabditis elegans C30B5.2a (C30B5.2) mRNA, complete cds. 10/11 None
SNAP00000017616 ENSEMBL cdna:SNAP chromosome:CEL140:II:6197308:6197880:1 9/11 None
GENEFINDER00000017626 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6197308:6197880:1 11/11 None
C30B5.2a ENSEMBL cdna:known chromosome:CEL140:II:6197148:6198525:1 gene:C30B5.2 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_062838 8/11 Cross Hyb Matching Probes None
C30B5.2b 8/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
174028 2 1 NM_062837 175414_at (11), 176720_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6197304-6198092(+) 100.0 100.0
Public Domain and Genome References
Ensembl C30B5.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN39678 Hypothetical protein C30B5.2a [Caenorhabditis elegans] ref|NP_495238.2| C30B5.2a [Caenorhabditis elegans] sp|Q18319|YTO2_CAEEL Hypothetical protein C30B5.2 in chromosome II 5.0E-61
blast AAN39678 Hypothetical protein C30B5.2a [Caenorhabditis elegans] ref|NP_495238.2| C30B5.2a [Caenorhabditis elegans] sp|Q18319|YTO2_CAEEL Hypothetical protein C30B5.2 in chromosome II 1.0E-60
blast AAN39679 Hypothetical protein C30B5.2b [Caenorhabditis elegans] ref|NP_495239.2| C30B5.2b [Caenorhabditis elegans] 5.0E-59
blast AAN39679 Hypothetical protein C30B5.2b [Caenorhabditis elegans] ref|NP_495239.2| C30B5.2b [Caenorhabditis elegans] 5.0E-58
blast AAN39678 Hypothetical protein C30B5.2a [Caenorhabditis elegans] ref|NP_495238.2| C30B5.2a [Caenorhabditis elegans] sp|Q18319|YTO2_CAEEL Hypothetical protein C30B5.2 in chromosome II 1.0E-57
blast AAN39679 Hypothetical protein C30B5.2b [Caenorhabditis elegans] ref|NP_495239.2| C30B5.2b [Caenorhabditis elegans] 1.0E-57
blast T15707 hypothetical protein C30B5.2 - Caenorhabditis elegans 1.0E-56
blast T15707 hypothetical protein C30B5.2 - Caenorhabditis elegans 1.0E-53
Protein Domains
Database ID Description E-Value
Pfam IPR007262 EMBL-EBI Vacuolar protein sorting 55 8.6E-11
Pfam IPR007262 EMBL-EBI Vacuolar protein sorting 55 6.3E-9
Pfam IPR007262 EMBL-EBI Vacuolar protein sorting 55 1.9E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495238.2 4 7-26,30-52,65-87,97-119
C30B5.2a 4 7-26,30-52,65-87,97-119
SNAP00000017616 4 20-42,46-65,78-100,110-132
GENEFINDER00000017626 4 19-41,45-67,80-102,112-134
Sequence
Target Sequence 
>C. ELEGANS:176720_AT
acagtgtttcgattgctgctctatgaaaaatacaattttagctgttgctgcactggcgtt
cgccggagttgttggcctcactttcctcgttcttggatgtgccctgcctaggtacggaac
atggaccccaatgtttgttatcacattctacgttctttcgccggtaccacttctcatcgc
cagacgcttccaagaagatatgactggaacaaatgcatgcattgaattagctctcttcat
caccactggaattgtcatctccgcctttgctcttccgatagtgctggcacatgcaggaac
gata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAGTGTTTCGATTGCTGCTCTATG 650 107 33 Antisense
TGCACTGGCGTTCGCCGGAGTTGTT 137 577 81 Antisense
CACTTTCCTCGTTCTTGGATGTGCC 292 197 111 Antisense
GCCCTGCCTAGGTACGGAACATGGA 228 277 133 Antisense
CGGAACATGGACCCCAATGTTTGTT 529 241 147 Antisense
TTTGTTATCACATTCTACGTTCTTT 354 667 166 Antisense
ATCGCCAGACGCTTCCAAGAAGATA 66 39 208 Antisense
TTGAATTAGCTCTCTTCATCACCAC 648 703 254 Antisense
TCACCACTGGAATTGTCATCTCCGC 211 625 272 Antisense
TTTGCTCTTCCGATAGTGCTGGCAC 272 667 298 Antisense
AGTGCTGGCACATGCAGGAACGATA 457 57 312 Antisense
Sequence Source Affymetrix Proprietary Database