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[173850_at]

Description CEK005G8R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T10G3.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27015 /WB_GENE_ID=T10G3.5 /WP=CE18952 /CHR=5 /FEA=Genomic Cluster /DEF=endosomal protein P162 like; C.elegans cDNA clone yk5g8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 73      4grp_highest_8_8 > 34      4grp_high_8_8 > 57      6grp_highest_nonorm > 66      6grp_total > 60      4grp_total > 62      6grp_highest_sub > 03_04      6grp_cgc > 94      6grp_high1_sub > 03_04      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 730
1 2 3 4 range
A 1285.6
(3)
P 		853.1
(-0.6)
P 		1007.6
(0.7)
P 		571.6
(-3)
P 		714
B 981.5
(3)
P 		928.8
(1.7)
P 		936.1
(1.9)
P 		734.6
(-3)
P 		247
C 1301.4
(3)
P 		890.3
(-1.2)
P 		1178.8
(1.8)
P 		708.9
(-3)
P 		593
avr 1189.5
(3) 		890.7
(-0.5) 		1040.8
(1.3) 		671.7
(-3) 		518

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1034
1 2 3 4 5 6 range
A 1320.2
(0.5)
P 		1255.5
(-1.2)
P 		1270
(-0.9)
P 		1415.3
(3)
P 		1206.7
(-2.5)
P 		1189
(-3)
P 		226
B 1360.8
(0)
P 		1249.9
(-1.1)
P 		1635.2
(2.7)
P 		1670.1
(3)
P 		1048.7
(-3)
P 		1476.3
(1.1)
P 		621
C 1124.6
(-1.3)
P 		1394.9
(0.2)
P 		1310.7
(-0.3)
P 		1871.6
(3)
P 		837.6
(-3)
P 		1517.5
(0.9)
P 		1034
avr 1268.5
(-0.7) 		1300.1
(-0.4) 		1405.3
(0.6) 		1652.3
(3) 		1031
(-3) 		1394.3
(0.5) 		621
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 384
1 2 3 4 range
A 468.1
(3)
P 		185.2
(-1.4)
P 		263.4
(-0.2)
P 		83.7
(-3)
P 		384
B 313
(3)
P 		229.4
(-0.2)
P 		216.9
(-0.7)
P 		156.5
(-3)
P 		157
C 430.8
(3)
P 		256
(-0.4)
P 		410.8
(2.6)
P 		119.5
(-3)
P 		311
avr 404
(3) 		223.5
(-0.8) 		297
(0.7) 		119.9
(-3) 		284

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 307
1 2 3 4 5 6 range
A 243.4
(-3)
P 		446.5
(3)
P 		276.6
(-2)
P 		358.9
(0.4)
P 		364.1
(0.6)
P 		289.5
(-1.6)
P 		203
B 473.5
(-0)
P 		416
(-2.3)
P 		397.1
(-3)
P 		442.4
(-1.2)
P 		426.1
(-1.9)
P 		550.5
(3)
P 		153
C 416.9
(0.7)
P 		425.6
(0.9)
P 		333.6
(-1.4)
P 		376.4
(-0.3)
P 		271
(-3)
P 		508
(3)
P 		237
avr 377.9
(-0.8) 		429.4
(1.9) 		335.8
(-3) 		392.6
(0) 		353.7
(-2.1) 		449.3
(3) 		114
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173850_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25382
Sequence Type Exemplar sequence
Representative Public ID CEK005G8R NCBI
Target Description CEK005G8R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T10G3.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27015 /WB_GENE_ID=T10G3.5 /WP=CE18952 /CHR=5 /FEA=Genomic Cluster /DEF=endosomal protein P162 like; C.elegans cDNA clone yk5g8 : 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_001028956(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028956 NCBI Caenorhabditis elegans EEA1 (Early Endosome Antigen, Rab effector) homolog family member (eea-1) (eea-1) mRNA, complete cds. 11/11 None
GENEFINDER00000037924 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13493728:13499958:-1 9/11 None
T10G3.5a ENSEMBL cdna:known chromosome:CEL140:V:13493659:13499963:-1 gene:T10G3.5 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
179832 2 1 NM_001028956 173850_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:13493677-13499959(-) 99.13 100.0
Public Domain and Genome References
Ensembl T10G3.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03330 Hypothetical protein T10G3.5a [Caenorhabditis elegans] ref|NP_001024127.1| EEA1 (Early Endosome Antigen, Rab effector) homolog family member (eea-1) [Caenorhabditis elegans] gb|AAK52089.1| EEA1 [Caenorhabditis elegans] 0.0
blast CAI46578 Hypothetical protein T10G3.5b [Caenorhabditis elegans] ref|NP_001024128.1| EEA1 (Early Endosome Antigen, Rab effector) homolog family member (eea-1) [Caenorhabditis elegans] 0.0
blast CAE62576 Hypothetical protein CBG06689 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000306 EMBL-EBI Zn-finger, FYVE type 4.9E-31
Pfam IPR000306 EMBL-EBI Zn-finger, FYVE type 4.9E-31
Sequence
Target Sequence 
>C. ELEGANS:173850_AT
atctgattatgatctatgtttgtaaattatcaaatgccctaatttatatacaagtacact
tatatttattaatcatattgaatccatctcccaatccctgcccgtatatacagagttatg
tgccatttcacgagaccgcccccaatcaaaaagacactcacgagtttcagttttaccaat
cccgatcctagttcattgtgtgatacat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCTGATTATGATCTATGTTTGTAA 174 35 3546 Antisense
TGCCCTAATTTATATACAAGTACAC 539 541 3580 Antisense
TCATATTGAATCCATCTCCCAATCC 111 619 3618 Antisense
CCAATCCCTGCCCGTATATACAGAG 290 277 3636 Antisense
GCCCGTATATACAGAGTTATGTGCC 259 287 3645 Antisense
TTATGTGCCATTTCACGAGACCGCC 61 681 3661 Antisense
CCAATCAAAAAGACACTCACGAGTT 498 275 3687 Antisense
GACACTCACGAGTTTCAGTTTTACC 518 367 3698 Antisense
GAGTTTCAGTTTTACCAATCCCGAT 561 371 3707 Antisense
ACCAATCCCGATCCTAGTTCATTGT 80 83 3720 Antisense
GATCCTAGTTCATTGTGTGATACAT 489 415 3729 Antisense
Sequence Source Affymetrix Proprietary Database