[Home] | [Total List]

[180611_at]

Description Y38H8A.1 /REP_DB=WormBase Gene ID /WP=CE19118 /TR=Q9XXR8 /GB=CAA16348.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 71      6grp_highest_nonorm > 90      6grp_total > 71      4grp_total > 48      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 356
1 2 3 4 range
A 41.2
(-3)
A 		277.4
(1.8)
P 		338.2
(3)
P 		137.6
(-1.1)
P 		297
B 47
(-3)
A 		265.4
(0.8)
P 		393.7
(3)
P 		117.8
(-1.8)
P 		347
C 37.3
(-3)
A 		332
(2)
P 		389.2
(3)
P 		169.8
(-0.7)
P 		352
avr 41.8
(-3) 		291.6
(1.5) 		373.7
(3) 		141.7
(-1.2) 		332

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 236
1 2 3 4 5 6 range
A 138.6
(-2.7)
P 		127.2
(-3)
P 		224.6
(-0.1)
P 		327.7
(3)
P 		203
(-0.7)
P 		130
(-2.9)
P 		201
B 107.1
(-2.5)
P 		140.2
(-1.4)
P 		179.6
(-0.1)
P 		272
(3)
P 		189.7
(0.3)
P 		91.5
(-3)
P 		181
C 114
(-2.5)
P 		97.9
(-3)
P 		174.7
(-0.5)
P 		281.7
(3)
P 		137.2
(-1.7)
P 		135.2
(-1.8)
P 		184
avr 119.9
(-3) 		121.8
(-2.9) 		193
(-0.5) 		293.8
(3) 		176.6
(-1) 		118.9
(-3) 		175
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 123
1 2 3 4 range
A 15
(-3)
A 		60.2
(0.7)
P 		88.4
(3)
P 		20.1
(-2.6)
P 		73
B 15
(-3)
A 		65.5
(1)
P 		91.2
(3)
P 		25.1
(-2.2)
P 		76
C 12.4
(-3)
A 		95.4
(1)
P 		135.7
(3)
P 		28.6
(-2.2)
P 		123
avr 14.1
(-3) 		73.7
(0.9) 		105.1
(3) 		24.6
(-2.3) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 25.6
(-3)
P 		45.2
(-1)
P 		48.9
(-0.6)
P 		83.1
(3)
P 		61.3
(0.7)
P 		31.7
(-2.4)
P 		58
B 37.3
(-2.6)
P 		46.7
(-1.2)
P 		43.6
(-1.7)
P 		72.1
(2.3)
P 		77.1
(3)
P 		34.1
(-3)
P 		43
C 42.2
(-0.2)
P 		29.9
(-3)
P 		44.5
(0.3)
P 		56.7
(3)
P 		44.4
(0.2)
P 		45.3
(0.4)
P 		27
avr 35
(-3) 		40.6
(-2.1) 		45.7
(-1.2) 		70.6
(3) 		60.9
(1.4) 		37
(-2.7) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180611_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9250
Sequence Type Exemplar sequence
Representative Public ID Y38H8A.1 NCBI
Target Description Y38H8A.1 /REP_DB=WormBase Gene ID /WP=CE19118 /TR=Q9XXR8 /GB=CAA16348.1 /SUBMIT=HINXTON /CHR=4 /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_070199(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070199 NCBI Caenorhabditis elegans Y38H8A.1 (Y38H8A.1) mRNA, complete cds. 11/11 None
SNAP00000011908 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13483516:13487053:1 11/11 None
GENEFINDER00000011910 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13483549:13485379:1 11/11 None
Y38H8A.1 ENSEMBL cdna:known chromosome:CEL140:IV:13483516:13485417:1 gene:Y38H8A.1 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:13483521-13485385(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38H8A.1
Entrez Gene 178317 Entrez gene
SwissProt Q9XXR8 EMBL-EBI
WormBase CE19118 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16348 Hypothetical protein Y38H8A.1 [Caenorhabditis elegans] ref|NP_502600.1| Y38H8A.1 [Caenorhabditis elegans] 1.0E-152
blast CAA16348 Hypothetical protein Y38H8A.1 [Caenorhabditis elegans] ref|NP_502600.1| Y38H8A.1 [Caenorhabditis elegans] 1.0E-148
blast CAA16348 Hypothetical protein Y38H8A.1 [Caenorhabditis elegans] ref|NP_502600.1| Y38H8A.1 [Caenorhabditis elegans] 1.0E-145
blast CAE58596 Hypothetical protein CBG01763 [Caenorhabditis briggsae] 1.0E-113
blast CAE58596 Hypothetical protein CBG01763 [Caenorhabditis briggsae] 1.0E-110
blast CAE58596 Hypothetical protein CBG01763 [Caenorhabditis briggsae] 1.0E-109
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502600.1 1 7-29
Y38H8A.1 1 7-29
SNAP00000011908 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:180611_AT
cacagcctactgaaccactggcaacggtggattcggcagctgcatcggcagcttcagctt
caactacagacaagactgttgacccgccaagaatatccaacagagaaccgtctcatgcta
agactttcgcggtgaaaacagacacaaggagtgaaaaatccaaaattgaagagaagacaa
gccgagacgaagggagcaataatgtgcacaatgatcgcgatttgttcgaagcacttcaag
ttgagaaaccagacatttgtggctcttgtccgccaatttggatgaaaaacactgcagaaa
tgaaggatatctgttcgaatcacgagtccgtctccgcgttcttttctatgacaatggaca
ggagagatgcacagaatgtggtggatagtagtgatgtgaaggaatgcacaaggacaattg
tatgctcagagcctcatatgcttgttaaatggcacgaatccgaactctgcgacgtacatg
ctccatcaaccggatctctgatttctgatatttcgaatactttcatttacaagtgcaatg
gaacccaatggacattacacggtttcccactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACAGCCTACTGAACCACTGGCAAC 495 195 227 Antisense
TGGCAACGGTGGATTCGGCAGCTGC 15 547 245 Antisense
GCAGCTTCAGCTTCAACTACAGACA 673 313 274 Antisense
AAGACTGTTGACCCGCCAAGAATAT 313 153 298 Antisense
CCAGACATTTGTGGCTCTTGTCCGC 166 273 475 Antisense
TCTGTTCGAATCACGAGTCCGTCTC 560 607 536 Antisense
CTCCGCGTTCTTTTCTATGACAATG 155 235 558 Antisense
ATGCTCAGAGCCTCATATGCTTGTT 290 43 648 Antisense
AATGGCACGAATCCGAACTCTGCGA 521 161 674 Antisense
TCAACCGGATCTCTGATTTCTGATA 484 631 712 Antisense
ATGGACATTACACGGTTTCCCACTT 615 51 774 Antisense
Sequence Source Affymetrix Proprietary Database