[Home] | [Total List]

[175555_s_at] retinal-binding like protein

Description AV184389_rc /REP_DB=TREMBL Accession /GB=AV184389 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk663h12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_high_8_8 > 24      6grp_highest_nonorm > 90      6grp_total > 40      4grp_total > 31      6grp_high1_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 192.3
(2.6)
P 		197.9
(3)
P 		114.3
(-3)
A 		166.9
(0.8)
A 		84
B 215.4
(3)
P 		119
(-3)
P 		167.3
(0)
P 		160.3
(-0.4)
P 		96
C 193.2
(3)
P 		107.5
(-3)
A 		158.9
(0.6)
P 		169.8
(1.4)
P 		86
avr 200.3
(3) 		141.5
(-3) 		146.8
(-2.5) 		165.7
(-0.5) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 226
1 2 3 4 5 6 range
A 224.1
(1.5)
P 		152
(-0.4)
P 		278.8
(3)
P 		134.9
(-0.8)
P 		52.9
(-3)
P 		149.5
(-0.4)
P 		226
B 185.1
(0.2)
P 		169.8
(-0.2)
P 		273.6
(3)
P 		184.1
(0.2)
P 		80.6
(-3)
P 		164.6
(-0.4)
P 		193
C 175.6
(0.4)
P 		228.4
(2.3)
P 		232.4
(2.4)
P 		248.8
(3)
P 		82.4
(-3)
P 		142.3
(-0.8)
P 		166
avr 194.9
(0.9) 		183.4
(0.5) 		261.6
(3) 		189.3
(0.7) 		72
(-3) 		152.1
(-0.5) 		190
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 70
(3)
P 		43
(-0.6)
P 		29.9
(-2.3)
A 		24.4
(-3)
A 		46
B 68.7
(3)
P 		29.4
(-3)
P 		38.8
(-1.6)
P 		34.2
(-2.3)
P 		39
C 63.9
(3)
P 		30.9
(-2.6)
A 		55.4
(1.6)
P 		28.6
(-3)
P 		35
avr 67.5
(3) 		34.4
(-2.2) 		41.4
(-1.1) 		29.1
(-3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 41.3
(0.4)
P 		54.1
(2.1)
P 		60.7
(3)
P 		34.2
(-0.6)
P 		16
(-3)
P 		36.4
(-0.3)
P 		45
B 64.4
(2.6)
P 		56.5
(1.2)
P 		66.4
(3)
P 		48.8
(-0.1)
P 		32.8
(-3)
P 		61.4
(2.1)
P 		34
C 65.1
(2.4)
P 		69.7
(3)
P 		59.2
(1.5)
P 		50
(0.3)
P 		26.7
(-3)
P 		47.6
(-0.1)
P 		43
avr 56.9
(2.2) 		60.1
(2.7) 		62.1
(3) 		44.3
(0.1) 		25.2
(-3) 		48.5
(0.8) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175555_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20555
Sequence Type Exemplar sequence
Representative Public ID AV184389 NCBI
Target Description AV184389_rc /REP_DB=TREMBL Accession /GB=AV184389 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk663h12 : 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_063394(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063394 NCBI Caenorhabditis elegans T13H5.2 (T13H5.2) mRNA, complete cds. 11/11 None
SNAP00000035140 ENSEMBL cdna:SNAP chromosome:CEL140:II:8515012:8516633:1 11/11 None
GENEFINDER00000035152 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8515012:8518123:1 9/11 None
T13H5.2 ENSEMBL cdna:known chromosome:CEL140:II:8514976:8516643:1 gene:T13H5.2 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
chrII:8516350-8516630(+) 100.0 100.0
Public Domain and Genome References
Gene Title retinal-binding like protein
Ensembl T13H5.2
Entrez Gene 174360 Entrez gene
SwissProt Q22467 EMBL-EBI
WormBase CE28959 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91418 Hypothetical protein T13H5.2 [Caenorhabditis elegans] ref|NP_495795.1| T13H5.2 [Caenorhabditis elegans] 0.0
blast CAE61014 Hypothetical protein CBG04752 [Caenorhabditis briggsae] 0.0
blast CAC70103 Hypothetical protein T13H5.7 [Caenorhabditis elegans] ref|NP_495796.1| RNase H family member (rnh-2) [Caenorhabditis elegans] gb|AAF01208.1| putative ribonuclease H2 large subunit [Caenorhabditis elegans] sp|Q9U6P6|RNHL_CAEEL Ribonuclease HI large subunit (RNase HI large subunit) (RNase H(35)) 1.0E-169
blast AAB52505 Hypothetical protein T27A10.7 [Caenorhabditis elegans] ref|NP_508618.2| CRAL/TRIO and GOLD domain suppressor of activated Ras family member (cgr-1) [Caenorhabditis elegans] 2.0E-71
Protein Domains
Database ID Description E-Value
Pfam IPR001251 EMBL-EBI Cellular retinaldehyde-binding)/triple function, C-terminal 4.0E-15
Pfam IPR001251 EMBL-EBI Cellular retinaldehyde-binding)/triple function, C-terminal 4.0E-15
Pfam IPR001352 EMBL-EBI Ribonuclease HII/HIII 3.9E-54
Sequence
Target Sequence 
>C. ELEGANS:175555_S_AT
gaaaactttattggtggtggaggctggagaataacgatatcaatttctcgattcttcgag
cagcagaaggtgaagagaaagttgcagagcatgacgatgactacatggtgcatccaaaat
tcaaacttcaaacagacttcgttccggaagatggagaagtgtgtgctgcggagcctggag
tatataaattcgta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAACTTTATTGGTGGTGGAGGCT 645 351 30 Antisense
GGTGGTGGAGGCTGGAGAATAACGA 604 497 42 Antisense
AACGATATCAATTTCTCGATTCTTC 216 145 62 Antisense
ATTTCTCGATTCTTCGAGCAGCAGA 484 15 72 Antisense
GATTCTTCGAGCAGCAGAAGGTGAA 224 431 79 Antisense
GTTGCAGAGCATGACGATGACTACA 199 439 110 Antisense
GACTACATGGTGCATCCAAAATTCA 657 371 128 Antisense
CAAACTTCAAACAGACTTCGTTCCG 691 191 151 Antisense
AACAGACTTCGTTCCGGAAGATGGA 132 135 160 Antisense
TGTGTGCTGCGGAGCCTGGAGTATA 188 555 189 Antisense
GGAGCCTGGAGTATATAAATTCGTA 222 517 199 Antisense
Sequence Source Affymetrix Proprietary Database