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[173500_at]

Description C50209 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R160.7 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50209 /WB_GENE_ID=R160.7 /WP=CE19557 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk478h7 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 48      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 67      6grp_total > 38      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1901
1 2 3 4 range
A 2225.9
(-0.3)
P 		1870.9
(-1.9)
P 		1636.1
(-3)
P 		2943.2
(3)
P 		1307
B 2425.7
(1.2)
P 		1789.8
(-1.3)
P 		1350.5
(-3)
P 		2883.1
(3)
P 		1533
C 2381.7
(-0.3)
P 		1771.2
(-2.6)
P 		1652.1
(-3)
P 		3251.5
(3)
P 		1599
avr 2344.4
(0.2) 		1810.6
(-1.9) 		1546.2
(-3) 		3025.9
(3) 		1480

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1176
1 2 3 4 5 6 range
A 2540.8
(3)
P 		1605.1
(-1.8)
P 		1365.3
(-3)
P 		1457.2
(-2.5)
P 		1722.7
(-1.2)
P 		1819.4
(-0.7)
P 		1176
B 2017
(2.7)
P 		1655.3
(-1.5)
P 		1530.6
(-3)
P 		1627.5
(-1.9)
P 		1622
(-1.9)
P 		2044.6
(3)
P 		514
C 1798.7
(0.3)
P 		1623.6
(-1.2)
P 		1420.5
(-3)
P 		1485.8
(-2.4)
P 		1616
(-1.3)
P 		2106.8
(3)
P 		686
avr 2118.8
(3) 		1628
(-1.3) 		1438.8
(-3) 		1523.5
(-2.3) 		1653.6
(-1.1) 		1990.3
(1.9) 		680
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 498
1 2 3 4 range
A 810.4
(3)
P 		406.1
(-3)
P 		427.7
(-2.7)
P 		430.8
(-2.6)
P 		404
B 773.5
(3)
P 		442
(-1.3)
P 		312.9
(-3)
P 		614.4
(0.9)
P 		461
C 788.4
(3)
P 		509.2
(-3)
P 		575.8
(-1.6)
P 		548.3
(-2.2)
P 		279
avr 790.8
(3) 		452.4
(-2.8) 		438.8
(-3) 		531.2
(-1.4) 		352

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 465
1 2 3 4 5 6 range
A 468.4
(0.8)
P 		570.9
(3)
P 		297.3
(-3)
P 		369.6
(-1.4)
P 		519.8
(1.9)
P 		443
(0.2)
P 		274
B 701.8
(2.1)
P 		551
(-0.2)
P 		371.7
(-3)
P 		431.1
(-2.1)
P 		659
(1.4)
P 		762.4
(3)
P 		391
C 666.7
(2.4)
P 		495.4
(-0.1)
P 		361.5
(-2.1)
P 		298.8
(-3)
P 		522.9
(0.3)
P 		705.3
(3)
P 		407
avr 612.3
(2.5) 		539.1
(1) 		343.5
(-3) 		366.5
(-2.5) 		567.2
(1.6) 		636.9
(3) 		293
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173500_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25952
Sequence Type Exemplar sequence
Representative Public ID C50209 NCBI
Target Description C50209 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R160.7 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50209 /WB_GENE_ID=R160.7 /WP=CE19557 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk478h7 : 5prime 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_076355(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076355 NCBI Caenorhabditis elegans Lateral Signaling Target family member (lst-2) (lst-2) mRNA, complete cds. 11/11 None
R160.7 ENSEMBL cdna:known chromosome:CEL140:X:4377978:4383339:-1 gene:R160.7 11/11 A 
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:4378034-4383333(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol lst-2
Ensembl R160.7
Entrez Gene 180712 Entrez gene
SwissProt Q9TZD0 EMBL-EBI
WormBase CE33815 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.22890.1.S1_AT similar to Zinc finger FYVE domain containing protein 28 cfa
CHICKEN:GGAAFFX.10003.1.S1_S_AT similar to mKIAA1643 protein gga
HG-U133_PLUS_2:232408_AT zinc finger, FYVE domain containing 28 hs
HG-U133B:232408_AT zinc finger, FYVE domain containing 28 hs
U133_X3P:HS.247383.0.S1_3P_AT zinc finger, FYVE domain containing 28 hs
HG-U133_PLUS_2:1569383_S_AT zinc finger, FYVE domain containing 28 hs
U133_X3P:HS2.388998.1.S1_3P_AT Zinc finger, FYVE domain containing 28 hs
U133_X3P:HS2.382606.1.S1_3P_S_AT Zinc finger, FYVE domain containing 28 hs
HG-U133_PLUS_2:1569369_AT Zinc finger, FYVE domain containing 28 hs
HG-U95C:50816_AT Zinc finger, FYVE domain containing 28 hs
HG-U95E:69901_AT Zinc finger, FYVE domain containing 28 hs
HG-U95E:79870_AT Zinc finger, FYVE domain containing 28 hs
MG-U74BV2:107366_AT zinc finger, FYVE domain containing 28 mm
MOE430B:1434504_AT zinc finger, FYVE domain containing 28 mm
MOUSE430_2:1434504_AT zinc finger, FYVE domain containing 28 mm
MG-U74BV2:111110_AT Zinc finger, FYVE domain containing 28 (Zfyve28), mRNA mm
MOUSE430_2:1443669_AT Zinc finger, FYVE domain containing 28 (Zfyve28), mRNA mm
MOE430B:1443669_AT Zinc finger, FYVE domain containing 28 (Zfyve28), mRNA mm
RAE230B:1398556_AT zinc finger, FYVE domain containing 28 (predicted) rn
RAT230_2:1398556_AT zinc finger, FYVE domain containing 28 (predicted) rn
RAE230A:1374240_AT Zinc finger, FYVE domain containing 28 (predicted) rn
RAT230_2:1374240_AT Zinc finger, FYVE domain containing 28 (predicted) rn
RAE230B:1381154_AT Zinc finger, FYVE domain containing 28 (predicted) rn
RAT230_2:1381154_AT Zinc finger, FYVE domain containing 28 (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC68738 Lateral signaling target protein 2 [Caenorhabditis elegans] ref|NP_508756.2| Lateral Signaling Target family member (lst-2) [Caenorhabditis elegans] 0.0
blast CAE68590 Hypothetical protein CBG14460 [Caenorhabditis briggsae] 0.0
blast XP_700230 PREDICTED: similar to Zinc finger FYVE domain containing protein 28 [Danio rerio] 7.0E-79
Protein Domains
Database ID Description E-Value
Pfam IPR000306 EMBL-EBI Zn-finger, FYVE type 1.2E-23
Sequence
Target Sequence 
>C. ELEGANS:173500_AT
tagccttgaattatattctgtccttatgtatttttaaatttatcttcaagtgactagtct
gtgatagaaaataacaagttcacacgcttatttcactcaaaagtgctcacacctatgtta
attcttgagcatattgccggtcctttgttttatgaactttacgtcattagtctttggtca
atcgttattg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAGCCTTGAATTATATTCTGTCCTT 486 651 2024 Antisense
ATATTCTGTCCTTATGTATTTTTAA 174 19 2036 Antisense
ATTTATCTTCAAGTGACTAGTCTGT 565 15 2061 Antisense
ACAAGTTCACACGCTTATTTCACTC 144 115 2097 Antisense
TTCACACGCTTATTTCACTCAAAAG 358 685 2102 Antisense
TCACTCAAAAGTGCTCACACCTATG 199 627 2116 Antisense
GTGCTCACACCTATGTTAATTCTTG 315 479 2126 Antisense
AATTCTTGAGCATATTGCCGGTCCT 193 177 2143 Antisense
TTGCCGGTCCTTTGTTTTATGAACT 494 701 2157 Antisense
GAACTTTACGTCATTAGTCTTTGGT 301 139 2177 Antisense
ATTAGTCTTTGGTCAATCGTTATTG 638 11 2189 Antisense
Sequence Source Affymetrix Proprietary Database