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[190492_at] Probable rabGAP domains

Description C38H2.1 /REP_DB=WormBase Gene ID /WP=CE00923 /TR=Q18514 /GB=CAA84706.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Probable rabGAP domains
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 28      4grp_high_8_8 > 09      6grp_highest_nonorm > 70      6grp_total > 27      4grp_total > 23      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 494
1 2 3 4 range
A 553.4
(3)
P 		255.4
(-1.3)
P 		141.1
(-3)
A 		478.4
(1.9)
P 		412
B 619.5
(3)
P 		154.4
(-3)
P 		178.6
(-2.7)
A 		517.7
(1.7)
P 		465
C 588.7
(3)
P 		230.2
(-1.6)
P 		125.8
(-3)
P 		410.5
(0.7)
P 		463
avr 587.2
(3) 		213.3
(-2.1) 		148.5
(-3) 		468.9
(1.4) 		439

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 318
1 2 3 4 5 6 range
A 469.9
(3)
P 		353.3
(0.3)
P 		213.5
(-2.9)
P 		209
(-3)
P 		305
(-0.8)
P 		270.5
(-1.6)
P 		261
B 519.1
(3)
P 		402.3
(0.6)
P 		221
(-3)
P 		261.3
(-2.2)
P 		232.6
(-2.8)
P 		288.4
(-1.6)
P 		298
C 436.2
(3)
P 		362.2
(1.1)
P 		222.9
(-2.4)
P 		201.1
(-3)
P 		205.4
(-2.9)
P 		280.3
(-1)
P 		235
avr 475.1
(3) 		372.6
(0.6) 		219.1
(-3) 		223.8
(-2.9) 		247.7
(-2.3) 		279.7
(-1.6) 		256
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 165
1 2 3 4 range
A 201.5
(3)
P 		55.4
(-2.3)
P 		36.9
(-3)
A 		70
(-1.8)
P 		165
B 197.6
(3)
P 		38.1
(-3)
P 		41.4
(-2.9)
A 		110.3
(-0.3)
P 		160
C 194.9
(3)
P 		66.2
(-2.1)
P 		43.9
(-3)
P 		69.2
(-2)
P 		151
avr 198
(3) 		53.2
(-2.5) 		40.7
(-3) 		83.2
(-1.4) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 86.6
(0)
P 		125.6
(3)
P 		46.5
(-3)
P 		53
(-2.5)
P 		92
(0.5)
P 		65.9
(-1.5)
P 		79
B 180.6
(3)
P 		133.9
(0.8)
P 		53.7
(-3)
P 		69.2
(-2.3)
P 		94.5
(-1.1)
P 		107.5
(-0.5)
P 		127
C 161.7
(3)
P 		110.5
(0.5)
P 		56.7
(-2.2)
P 		40.4
(-3)
P 		66.5
(-1.7)
P 		93.8
(-0.4)
P 		121
avr 143
(3) 		123.3
(1.7) 		52.3
(-3) 		54.2
(-2.9) 		84.3
(-0.9) 		89.1
(-0.6) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190492_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6355
Sequence Type Exemplar sequence
Representative Public ID C38H2.1 NCBI
Target Description C38H2.1 /REP_DB=WormBase Gene ID /WP=CE00923 /TR=Q18514 /GB=CAA84706.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Probable rabGAP domains
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_066891(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066891 NCBI Caenorhabditis elegans C38H2.1 (C38H2.1) mRNA, complete cds. 11/11 None
SNAP00000026778 ENSEMBL cdna:SNAP chromosome:CEL140:III:10368652:10372939:1 11/11 None
GENEFINDER00000026795 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10369399:10380688:1 11/11 None
C38H2.1 ENSEMBL cdna:known chromosome:CEL140:III:10364982:10373116:1 gene:C38H2.1 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
chrIII:10364977-10372935(+) 100.0 100.0
Public Domain and Genome References
Gene Title Probable rabGAP domains
Ensembl C38H2.1
Entrez Gene 176454 Entrez gene
SwissProt Q18514 EMBL-EBI
WormBase CE32601 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.17943.1.S1_S_AT similar to RUN and TBC1 domain containing 2 cfa
DROSOPHILA_2:1638381_S_AT dm
DROSOPHILA_2:1634547_AT dm
DROSGENOME1:145430_S_AT dm
HU35KSUBB:RC_H38457_AT RUN and TBC1 domain containing 2 hs
U133_X3P:HS2.419108.1.S1_3P_AT RUN and TBC1 domain containing 2 hs
U133_X3P:HS.259720.0.A1_3P_S_AT RUN and TBC1 domain containing 2 hs
U133_X3P:HS.128739.0.A1_3P_AT RUN and TBC1 domain containing 2 hs
U133_X3P:1562239_3P_AT RUN and TBC1 domain containing 2 hs
HG-U133_PLUS_2:1562239_AT RUN and TBC1 domain containing 2 hs
HG-U133_PLUS_2:230287_AT RUN and TBC1 domain containing 2 hs
HG-U133B:230287_AT RUN and TBC1 domain containing 2 hs
HG-U133_PLUS_2:242921_AT RUN and TBC1 domain containing 2 hs
HG-U133B:242921_AT RUN and TBC1 domain containing 2 hs
HG-U95C:55801_AT RUN and TBC1 domain containing 2 hs
MOUSE430_2:1429820_AT RUN and TBC1 domain containing 2 mm
MOE430B:1429820_AT RUN and TBC1 domain containing 2 mm
MG-U74BV2:105018_AT RUN and TBC1 domain containing 2 mm
MG-U74CV2:168674_I_AT RUN and TBC1 domain containing 2 mm
MG-U74CV2:168989_R_AT RUN and TBC1 domain containing 2 mm
MOE430B:1447980_S_AT RUN and TBC1 domain containing 2 mm
MOUSE430_2:1447980_S_AT RUN and TBC1 domain containing 2 mm
MOE430B:1447979_AT RUN and TBC1 domain containing 2 mm
MOUSE430_2:1447979_AT RUN and TBC1 domain containing 2 mm
MG-U74CV2:138184_AT RUN and TBC1 domain containing 2 (Rutbc2), mRNA mm
MOUSE430_2:1443529_AT RUN and TBC1 domain containing 2 (Rutbc2), mRNA mm
MOE430B:1443529_AT RUN and TBC1 domain containing 2 (Rutbc2), mRNA mm
MU19KSUBC:TC39513_AT RUN and TBC1 domain containing 2 (Rutbc2), mRNA mm
Protein Similarities
Method ID Description E-Value
blast CAA84706 Hypothetical protein C38H2.1 [Caenorhabditis elegans] ref|NP_499292.2| C38H2.1 [Caenorhabditis elegans] 0.0
blast CAE71480 Hypothetical protein CBG18399 [Caenorhabditis briggsae] 0.0
blast CAI23393 OTTHUMP00000028774 [Homo sapiens] 1.0E-114
Protein Domains
Database ID Description E-Value
Pfam IPR000195 EMBL-EBI RabGAP/TBC domain 1.5E-4
Pfam IPR004012 EMBL-EBI RUN domain 2.9E-41
Pfam IPR000195 EMBL-EBI RabGAP/TBC domain 1.5E-4
Pfam IPR000195 EMBL-EBI RabGAP/TBC domain 1.5E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000026795 2 604-623,655-677
Sequence
Target Sequence 
>C. ELEGANS:190492_AT
cacatatgtgcgccgaaacctcgaagaaggatatactcaaggaatgtgcgacttgttggc
tccactgttggttacttttgaagatgaggctttaacacttgagtgcttctcacttttgat
gcttcggcaacgaggaaagtttccgcaacgtccagggatgtcaaagtgtctgttgaactt
gagatcattgatacaggttgtcgatccacaaatctacgcccttatctctgacatcgacta
tgctcaagcactatcgttcgcttttagatggtttttgctggacttcaaacgagaactatc
ctacgaatgtacctacaaagtatgggaggtcatctgggctgctcagcgactccggatcac
agatgattttgcgattttctttggcttggcaacaatcaccaactatcacgatgtccttat
cacaaacaactttgactatactgatatgattaaatttttcaatgaaatggccgaacgtca
cgattgctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACATATGTGCGCCGAAACCTCGAA 66 197 1881 Antisense
TGTTGGCTCCACTGTTGGTTACTTT 596 561 1934 Antisense
TTCTCACTTTTGATGCTTCGGCAAC 480 691 1987 Antisense
TTTCCGCAACGTCCAGGGATGTCAA 522 669 2020 Antisense
GGTTGTCGATCCACAAATCTACGCC 566 503 2076 Antisense
CCCTTATCTCTGACATCGACTATGC 538 259 2099 Antisense
CTATGCTCAAGCACTATCGTTCGCT 322 225 2118 Antisense
GTATGGGAGGTCATCTGGGCTGCTC 50 457 2200 Antisense
TCAGCGACTCCGGATCACAGATGAT 385 625 2223 Antisense
AATCACCAACTATCACGATGTCCTT 176 171 2274 Antisense
AATGGCCGAACGTCACGATTGCTCA 704 161 2346 Antisense
Sequence Source Affymetrix Proprietary Database