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[180447_at]

Description F54C9.11 /REP_DB=WormBase Gene ID /WP=CE02251 /TR=Q20759 /GB=CAA90256.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 09      6grp_high1_10_10 > 90      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 72      6grp_total > 01      4grp_total > 04      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 670
1 2 3 4 range
A 550.3
(-0.8)
P 		409.2
(-2.3)
P 		339.3
(-3)
P 		924.4
(3)
P 		585
B 559.2
(-1.4)
P 		438.7
(-2.5)
P 		388.9
(-3)
P 		1009.2
(3)
P 		620
C 652.6
(0.1)
P 		416.7
(-3)
P 		510.6
(-1.8)
P 		880.5
(3)
P 		464
avr 587.4
(-1) 		421.5
(-2.9) 		412.9
(-3) 		938
(3) 		525

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 290
1 2 3 4 5 6 range
A 394.4
(-0.7)
P 		552.6
(3)
P 		458.2
(0.8)
P 		500.2
(1.8)
P 		502.8
(1.8)
P 		294.5
(-3)
P 		258
B 467.1
(-1.3)
P 		584.4
(3)
P 		508.3
(0.2)
P 		432.9
(-2.6)
P 		546.2
(1.6)
P 		421
(-3)
P 		163
C 428.9
(-0.4)
P 		489.5
(2)
P 		361.5
(-3)
P 		440.4
(0.1)
P 		514.2
(3)
P 		386.6
(-2)
P 		153
avr 430.1
(-0.8) 		542.2
(3) 		442.7
(-0.4) 		457.8
(0.1) 		521.1
(2.3) 		367.4
(-3) 		175
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 200.4
(3)
P 		88.8
(-3)
P 		88.7
(-3)
P 		135.3
(-0.5)
P 		112
B 178.3
(1.2)
P 		108.4
(-2.1)
P 		90.1
(-3)
P 		215.1
(3)
P 		125
C 216
(3)
P 		119.8
(-3)
P 		177.9
(0.6)
P 		148.5
(-1.2)
P 		96
avr 198.2
(3) 		105.7
(-3) 		118.9
(-2.1) 		166.3
(0.9) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 72.7
(-3)
P 		196.5
(3)
P 		99.8
(-1.6)
P 		126.9
(-0.3)
P 		151.7
(0.8)
P 		71.7
(-3)
P 		125
B 162.5
(-0.3)
P 		194.5
(1.5)
P 		123.4
(-2.5)
P 		114.7
(-3)
P 		221.9
(3)
P 		157
(-0.6)
P 		107
C 159
(2.4)
P 		149.4
(1.7)
P 		92
(-2.7)
P 		88.6
(-3)
P 		166.4
(3)
P 		129.4
(0.1)
P 		78
avr 131.4
(-0.9) 		180.1
(3) 		105.1
(-3) 		110.1
(-2.6) 		180
(3) 		119.4
(-1.9) 		75
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180447_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3283
Sequence Type Exemplar sequence
Representative Public ID F54C9.11 NCBI
Target Description F54C9.11 /REP_DB=WormBase Gene ID /WP=CE02251 /TR=Q20759 /GB=CAA90256.1 /SUBMIT=HINXTON /CHR=2 /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_063416(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063416 NCBI Caenorhabditis elegans F54C9.11 (F54C9.11) mRNA, complete cds. 11/11 None
SNAP00000013428 ENSEMBL cdna:SNAP chromosome:CEL140:II:8583027:8584375:-1 10/11 None
GENEFINDER00000013452 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8583027:8584972:-1 10/11 None
F54C9.11 ENSEMBL cdna:known chromosome:CEL140:II:8583423:8584972:-1 gene:F54C9.11 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:8583419-8584969(-) 96.66 100.0
Public Domain and Genome References
Gene Title
Ensembl F54C9.11
Entrez Gene 186226 Entrez gene
SwissProt Q20759 EMBL-EBI
WormBase CE02251 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.24396.1.S1_AT similar to RAB3A interacting protein (rabin3)-like 1 cfa
CANINE_2:CFAAFFX.24396.1.S1_S_AT similar to RAB3A interacting protein (rabin3)-like 1 cfa
CHICKEN:GGAAFFX.4506.1.S1_AT similar to RAB3A interacting protein (rabin3)-like 1 gga
CHICKEN:GGAAFFX.4506.2.S1_S_AT similar to RAB3A interacting protein (rabin3)-like 1 gga
HG-U133_PLUS_2:219579_AT RAB3A interacting protein (rabin3)-like 1 hs
HG-U133A:219579_AT RAB3A interacting protein (rabin3)-like 1 hs
HG-FOCUS:219579_AT RAB3A interacting protein (rabin3)-like 1 hs
HG-U133A_2:219579_AT RAB3A interacting protein (rabin3)-like 1 hs
HU35KSUBB:RC_T70580_AT RAB3A interacting protein (rabin3)-like 1 hs
U133_X3P:G7019512_3P_S_AT RAB3A interacting protein (rabin3)-like 1 hs
HG-U95B:47507_AT RAB3A interacting protein (rabin3)-like 1 hs
MG-U74AV2:101221_AT RAB3A interacting protein (rabin3)-like 1 mm
MU11KSUBA:C76746_RC_AT RAB3A interacting protein (rabin3)-like 1 mm
MG-U74BV2:106602_AT RAB3A interacting protein (rabin3)-like 1 mm
MOE430A:1425133_S_AT RAB3A interacting protein (rabin3)-like 1 mm
MOUSE430A_2:1425133_S_AT RAB3A interacting protein (rabin3)-like 1 mm
MOUSE430_2:1425133_S_AT RAB3A interacting protein (rabin3)-like 1 mm
MOE430A:1456442_AT RAB3A interacting protein (rabin3)-like 1 mm
MOUSE430A_2:1456442_AT RAB3A interacting protein (rabin3)-like 1 mm
MOUSE430_2:1456442_AT RAB3A interacting protein (rabin3)-like 1 mm
MOE430B:1428391_AT RAB3A interacting protein (rabin3)-like 1 mm
MOUSE430_2:1428391_AT RAB3A interacting protein (rabin3)-like 1 mm
MU19KSUBC:TC41776_AT RAB3A interacting protein (rabin3)-like 1 (Rab3il1), mRNA mm
RAE230A:1369305_AT RAB3A interacting protein (rabin3)-like 1 rn
RAT230_2:1369305_AT RAB3A interacting protein (rabin3)-like 1 rn
RAE230B:1385052_AT RAB3A interacting protein (rabin3)-like 1 rn
RAT230_2:1385052_AT RAB3A interacting protein (rabin3)-like 1 rn
Protein Similarities
Method ID Description E-Value
blast CAE57577 Hypothetical protein CBG00556 [Caenorhabditis briggsae] 1.0E-155
blast CAA90256 Hypothetical protein F54C9.11 [Caenorhabditis elegans] ref|NP_495817.1| F54C9.11 [Caenorhabditis elegans] 1.0E-153
blast CAA90256 Hypothetical protein F54C9.11 [Caenorhabditis elegans] ref|NP_495817.1| F54C9.11 [Caenorhabditis elegans] 1.0E-144
blast CAE57577 Hypothetical protein CBG00556 [Caenorhabditis briggsae] 1.0E-128
blast CAE57577 Hypothetical protein CBG00556 [Caenorhabditis briggsae] 1.0E-122
blast CAA90256 Hypothetical protein F54C9.11 [Caenorhabditis elegans] ref|NP_495817.1| F54C9.11 [Caenorhabditis elegans] 1.0E-113
blast XP_392609 PREDICTED: similar to RAB3A interacting protein (rabin3)-like 1 [Apis mellifera] 1.0E-37
blast XP_392609 PREDICTED: similar to RAB3A interacting protein (rabin3)-like 1 [Apis mellifera] 8.0E-36
Sequence
Target Sequence 
>C. ELEGANS:180447_AT
tgatatctgctccaggaatgggtcaaaaccatttcaagcagacaacatctccagaacata
aatcaactttatcaaaactattcaatggatcaagttcatcatcaaaaaaacaaaaagacg
ctgcaaatgtatcagataaaaagaaagcttcatcacttccatctacatcaacatatacac
taacaccatcagaagatagagaacaaaaagaagcaaatgcagttgaagagatcgatccaa
ttcttttttctgaatttgaattttggagagaagctggacatccgacgacatctcatccat
ttattgatagagttaccgttgaagaagttgaaccatgtatgctattcgaaaactctgagt
tatcagaagaaataatgaaggcaattcgagagaatcgtgttcaacttgaaccattaaatg
aactgaaaccatctgtaaggatttgtgcattaacaaatgcttcaaggttttgtccgtatc
gagtaagaactggtgatgaggaacaagaatggcattatgtttcgttaattgccaggaata
gggtgagttattccacttttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATATCTGCTCCAGGAATGGGTCA 666 563 407 Antisense
AACCATTTCAAGCAGACAACATCTC 428 147 433 Antisense
ATCACTTCCATCTACATCAACATAT 21 29 558 Antisense
ATCAACATATACACTAACACCATCA 355 27 573 Antisense
GAGAAGCTGGACATCCGACGACATC 664 391 674 Antisense
CGACGACATCTCATCCATTTATTGA 482 251 689 Antisense
GAAGTTGAACCATGTATGCTATTCG 195 337 730 Antisense
GAAACCATCTGTAAGGATTTGTGCA 338 359 831 Antisense
GCTTCAAGGTTTTGTCCGTATCGAG 260 305 865 Antisense
GCATTATGTTTCGTTAATTGCCAGG 514 305 918 Antisense
TAGGGTGAGTTATTCCACTTTTCTT 178 653 945 Antisense
Sequence Source Affymetrix Proprietary Database