[Home] | [Total List]

[189085_at] sushi repeats

Description T07H6.4 /REP_DB=WormBase Gene ID /WP=CE04914 /TR=Q22327 /GB=AAA96224.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=sushi repeats
Cluster 6grp_total > 02      4grp_total > 38      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 122
1 2 3 4 range
A 85
(3)
A 		75.1
(2.2)
A 		9.1
(-3)
A 		20
(-2.1)
A 		76
B 84.1
(3)
A 		37
(-0.7)
A 		8
(-3)
A 		54.1
(0.6)
A 		76
C 129.8
(3)
A 		27.1
(-2.9)
A 		34.3
(-2.5)
A 		24.7
(-3)
A 		105
avr 99.6
(3) 		46.4
(-0.9) 		17.1
(-3) 		32.9
(-1.9) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 86
1 2 3 4 5 6 range
A 29.9
(-2.5)
A 		93.4
(3)
A 		24.7
(-3)
A 		57.5
(-0.1)
A 		31.1
(-2.4)
A 		56.1
(-0.3)
A 		69
B 77.3
(3)
A 		77.4
(3)
A 		24.2
(-2.5)
A 		31.1
(-1.8)
A 		19.2
(-3)
A 		26.3
(-2.3)
A 		58
C 76.1
(0.6)
A 		83.4
(1.2)
A 		34
(-3)
A 		105.1
(3)
A 		77.8
(0.7)
A 		39.7
(-2.5)
A 		71
avr 61.1
(0.5) 		84.7
(3) 		27.6
(-3) 		64.6
(0.9) 		42.7
(-1.4) 		40.7
(-1.6) 		57
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 31
(3)
A 		16.3
(-0.1)
A 		2.4
(-3)
A 		2.9
(-2.9)
A 		29
B 26.8
(3)
A 		9.1
(-1.3)
A 		1.9
(-3)
A 		11.5
(-0.7)
A 		25
C 43
(3)
A 		7.8
(-2.4)
A 		12
(-1.8)
A 		4.2
(-3)
A 		39
avr 33.6
(3) 		11.1
(-1.8) 		5.4
(-3) 		6.2
(-2.8) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 5.5
(-3)
A 		33.2
(3)
A 		5.4
(-3)
A 		14.6
(-1)
A 		9.4
(-2.1)
A 		13.7
(-1.2)
A 		28
B 26.9
(3)
A 		25.8
(2.7)
A 		5.9
(-3)
A 		8.2
(-2.3)
A 		7.8
(-2.5)
A 		9.8
(-1.9)
A 		21
C 28.2
(3)
A 		25.5
(2.2)
A 		8.6
(-3)
A 		21.1
(0.8)
A 		25.2
(2.1)
A 		13.3
(-1.6)
A 		20
avr 20.2
(0.8) 		28.2
(3) 		6.6
(-3) 		14.6
(-0.8) 		14.1
(-0.9) 		12.3
(-1.4) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189085_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16516
Sequence Type Exemplar sequence
Representative Public ID T07H6.4 NCBI
Target Description T07H6.4 /REP_DB=WormBase Gene ID /WP=CE04914 /TR=Q22327 /GB=AAA96224.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=sushi repeats
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_076651(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076651 NCBI Caenorhabditis elegans T07H6.4 (T07H6.4) mRNA, complete cds. 11/11 None
SNAP00000003214 ENSEMBL cdna:SNAP chromosome:CEL140:X:6281924:6283462:-1 11/11 None
GENEFINDER00000003223 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6281924:6283462:-1 11/11 None
T07H6.4 ENSEMBL cdna:known chromosome:CEL140:X:6281924:6286128:-1 gene:T07H6.4 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
chrX:6281923-6286128(-) 100.0 100.0
Public Domain and Genome References
Gene Title sushi repeats
Ensembl T07H6.4
Entrez Gene 188252 Entrez gene
SwissProt Q22327 EMBL-EBI
WormBase CE04914 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA96224 Hypothetical protein T07H6.4 [Caenorhabditis elegans] ref|NP_509052.1| T07H6.4 [Caenorhabditis elegans] 0.0
blast CAE61231 Hypothetical protein CBG05030 [Caenorhabditis briggsae] 0.0
blast AAA96224 Hypothetical protein T07H6.4 [Caenorhabditis elegans] ref|NP_509052.1| T07H6.4 [Caenorhabditis elegans] 1.0E-149
blast CAE61231 Hypothetical protein CBG05030 [Caenorhabditis briggsae] 1.0E-120
blast Q09101 Locomotion-related protein Hikaru genki precursor dbj|BAA02986.1| hikaru genki type3 product precursor [Drosophila melanogaster] 2.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 5.6E-5
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 4.8E-11
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 1.4E-7
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 1.2E-8
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 5.6E-5
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 4.8E-11
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 1.4E-7
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 1.2E-8
Sequence
Target Sequence 
>C. ELEGANS:189085_AT
ggatgactgtgacggtgacttcttatagaactggcggtgtcgctcatttcaaatgccata
aaggattcacgttgattggagaacaaaacttgcattgtacaactcaaggaacttggagtc
acgacttcccatactgcaacgttgtccattgcccacctcttcttccgccggcaaatggtc
attttattggagagccaaaggagattaacacaaaaggagacattgttttgcttggatgcc
tcccgaattacatgctgactggcggcgatttttctgtctgccaagccgatggcgaatgga
gcgagatcaagacgaaatgcgacggctactgtaggcatccagggcaacccgaccatggag
ctaccaccacaattgctaaagattattattctatcggggagaaaattgtgttttactgcc
cgtctcagaattacaaattgagttctgacaatgttttggtttgcatatcgcctggtcaat
ggtcacgacgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGACTGTGACGGTGACTTCTTA 274 513 1601 Antisense
AGAACTGGCGGTGTCGCTCATTTCA 414 73 1627 Antisense
ACTTGGAGTCACGACTTCCCATACT 659 103 1711 Antisense
TTCCCATACTGCAACGTTGTCCATT 226 697 1726 Antisense
TTCTTCCGCCGGCAAATGGTCATTT 419 675 1760 Antisense
GACATTGTTTTGCTTGGATGCCTCC 260 371 1819 Antisense
GCCTCCCGAATTACATGCTGACTGG 679 281 1838 Antisense
CTGGCGGCGATTTTTCTGTCTGCCA 558 241 1859 Antisense
TGCGACGGCTACTGTAGGCATCCAG 375 583 1918 Antisense
GTTTTACTGCCCGTCTCAGAATTAC 587 447 2010 Antisense
ATCGCCTGGTCAATGGTCACGACGT 305 37 2067 Antisense
Sequence Source Affymetrix Proprietary Database