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[190483_at] Probable rabGAP domains

Description B0393.2 /REP_DB=WormBase Gene ID /WP=CE00855 /TR=Q17491 /GB=CAA86055.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Probable rabGAP domains
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 97      4grp_highest_8_8 > 61      4grp_high_8_8 > 17      6grp_highest_nonorm > 92      6grp_total > 86      4grp_total > 30      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 134
1 2 3 4 range
A 309.2
(3)
P 		246.1
(-0.1)
P 		188.9
(-3)
P 		238.2
(-0.5)
P 		120
B 322.9
(3)
P 		228.7
(-1.5)
P 		198.2
(-3)
P 		250.2
(-0.5)
P 		125
C 306.6
(2.9)
P 		235.4
(-0.8)
P 		191.3
(-3)
P 		308.9
(3)
P 		118
avr 312.9
(3) 		236.7
(-0.8) 		192.8
(-3) 		265.8
(0.6) 		120

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 236
1 2 3 4 5 6 range
A 305
(-0.1)
P 		271.5
(-1.1)
P 		210.4
(-3)
P 		336.3
(0.9)
P 		331.9
(0.7)
P 		404.9
(3)
P 		195
B 221.2
(-3)
P 		230.6
(-2.6)
P 		260.5
(-1.4)
P 		311.4
(0.8)
P 		303.6
(0.5)
P 		364.4
(3)
P 		143
C 233.7
(-3)
P 		283.5
(-1.6)
P 		245.3
(-2.7)
P 		294.5
(-1.3)
P 		329.4
(-0.3)
P 		446.1
(3)
P 		212
avr 253.3
(-2.5) 		261.9
(-2.2) 		238.7
(-3) 		314.1
(-0.3) 		321.6
(-0) 		405.1
(3) 		166
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 112.6
(3)
P 		53.4
(-1.6)
P 		49.4
(-1.9)
P 		34.9
(-3)
P 		78
B 103
(3)
P 		56.5
(-1.9)
P 		45.9
(-3)
P 		53.3
(-2.2)
P 		57
C 101.5
(3)
P 		67.7
(-1.1)
P 		66.7
(-1.2)
P 		52.1
(-3)
P 		49
avr 105.7
(3) 		59.2
(-1.7) 		54
(-2.3) 		46.8
(-3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 104
1 2 3 4 5 6 range
A 56.2
(-1.9)
P 		96.5
(2.6)
P 		45.8
(-3)
P 		85.3
(1.4)
P 		100.1
(3)
P 		98.6
(2.8)
P 		54
B 77
(-1.9)
P 		76.8
(-1.9)
P 		63.3
(-3)
P 		82.5
(-1.4)
P 		123.3
(2)
P 		135.9
(3)
P 		73
C 86.6
(-1.2)
P 		86.5
(-1.2)
P 		62.4
(-2.8)
P 		59.2
(-3)
P 		106.6
(0.2)
P 		149.3
(3)
P 		90
avr 73.3
(-1.6) 		86.6
(-0.5) 		57.2
(-3) 		75.7
(-1.4) 		110
(1.5) 		127.9
(3) 		71
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190483_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7416
Sequence Type Exemplar sequence
Representative Public ID B0393.2 NCBI
Target Description B0393.2 /REP_DB=WormBase Gene ID /WP=CE00855 /TR=Q17491 /GB=CAA86055.1 /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_065578(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065578 NCBI Caenorhabditis elegans B0393.2 (B0393.2) mRNA, complete cds. 11/11 None
GENEFINDER00000037578 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4754245:4756742:1 11/11 None
SNAP00000037565 ENSEMBL cdna:SNAP chromosome:CEL140:III:4754581:4756742:1 11/11 None
B0393.2.2 ENSEMBL cdna:known chromosome:CEL140:III:4754394:4756975:1 gene:B0393.2 11/11 None
B0393.2.1 ENSEMBL cdna:known chromosome:CEL140:III:4754550:4756975:1 gene:B0393.2 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
chrIII:4754580-4756742(+) 100.0 100.0
Public Domain and Genome References
Gene Title Probable rabGAP domains
Ensembl B0393.2
Entrez Gene 175629 Entrez gene
SwissProt Q17491 EMBL-EBI
WormBase CE00855 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.9737.1.S1_AT similar to TBC1 domain family member 5 cfa
CANINE_2:CFAAFFX.9740.1.S1_S_AT similar to TBC1 domain family member 5 cfa
CHICKEN:GGA.12376.1.S1_AT TBC1 domain family, member 5 gga
HG-U133A:201813_S_AT TBC1 domain family, member 5 hs
HG-U133A_2:201813_S_AT TBC1 domain family, member 5 hs
HG-U133_PLUS_2:201813_S_AT TBC1 domain family, member 5 hs
HG-U133A:201815_S_AT TBC1 domain family, member 5 hs
HG-U133A_2:201815_S_AT TBC1 domain family, member 5 hs
HG-U133_PLUS_2:201815_S_AT TBC1 domain family, member 5 hs
HU35KSUBD:RC_AA416870_AT TBC1 domain family, member 5 hs
HUGENEFL:D86965_AT TBC1 domain family, member 5 hs
U133_X3P:G7661997_3P_A_AT TBC1 domain family, member 5 hs
U133_X3P:HS.115740.0.S1_3P_A_AT TBC1 domain family, member 5 hs
HG-U95AV2:37531_AT TBC1 domain family, member 5 hs
HG-U133_PLUS_2:215612_AT TBC1 domain family, member 5 hs
HG-U133A_2:215612_AT TBC1 domain family, member 5 hs
HG-U133A:215612_AT TBC1 domain family, member 5 hs
U133_X3P:HS.306652.0.S1_3P_X_AT TBC1 domain family, member 5 hs
U133_X3P:HS.306652.0.S1_3P_AT TBC1 domain family, member 5 hs
U133_X3P:HS.296716.0.S1_3P_AT TBC1 domain family, member 5 hs
U133_X3P:HS.115740.0.S3_3P_AT TBC1 domain family, member 5 hs
U133_X3P:233383_3P_AT TBC1 domain family, member 5 hs
HG-U133A_2:201814_AT TBC1 domain family, member 5 hs
HG-U133_PLUS_2:201814_AT TBC1 domain family, member 5 hs
HG-U133A:201814_AT TBC1 domain family, member 5 hs
HG-U133_PLUS_2:233383_AT TBC1 domain family, member 5 hs
HG-U133B:233383_AT TBC1 domain family, member 5 hs
HG-U95E:91405_AT TBC1 domain family, member 5 hs
HG-U133_PLUS_2:231281_AT TBC1 domain family, member 5 hs
HG-U133B:231281_AT TBC1 domain family, member 5 hs
HG-U95C:55903_AT TBC1 domain family, member 5 hs
HG-U95E:68028_AT TBC1 domain family, member 5 hs
HG-U95E:68849_AT TBC1 domain family, member 5 hs
HG-U95E:75983_AT TBC1 domain family, member 5 hs
HG-U95D:83856_R_AT TBC1 domain family, member 5 hs
HG-U95D:84262_R_AT TBC1 domain family, member 5 hs
HU35KSUBA:RC_AA005308_AT TBC1 domain family, member 5 hs
U133_X3P:HS.17967.0.A1_3P_AT TBC1 domain family, member 5 hs
MOUSE430_2:1439544_AT TBC1 domain family, member 5 mm
MOE430B:1439544_AT TBC1 domain family, member 5 mm
MOE430B:1430808_AT TBC1 domain family, member 5 mm
MOUSE430_2:1430808_AT TBC1 domain family, member 5 mm
MOE430B:1443896_AT TBC1 domain family, member 5 mm
MOUSE430_2:1443896_AT TBC1 domain family, member 5 mm
MOE430B:1443216_AT TBC1 domain family, member 5, mRNA (cDNA clone MGC:106461 IMAGE:30357143) mm
MOUSE430_2:1443216_AT TBC1 domain family, member 5, mRNA (cDNA clone MGC:106461 IMAGE:30357143) mm
MOUSE430_2:1447200_AT TBC1 domain family, member 5, mRNA (cDNA clone MGC:106461 IMAGE:30357143) mm
MOE430B:1447200_AT TBC1 domain family, member 5, mRNA (cDNA clone MGC:106461 IMAGE:30357143) mm
MOUSE430_2:1458069_AT TBC1 domain family, member 5, mRNA (cDNA clone MGC:106461 IMAGE:30357143) mm
MOE430B:1458069_AT TBC1 domain family, member 5, mRNA (cDNA clone MGC:106461 IMAGE:30357143) mm
RAE230B:1394717_AT Similar to TBC1 domain family, member 5 rn
RAT230_2:1394717_AT Similar to TBC1 domain family, member 5 rn
RG-U34B:RC_AI071047_AT Similar to TBC1 domain family, member 5 rn
Protein Similarities
Method ID Description E-Value
blast CAA86055 Hypothetical protein B0393.2 [Caenorhabditis elegans] ref|NP_497979.1| B0393.2 [Caenorhabditis elegans] 0.0
blast CAE71138 Hypothetical protein CBG17993 [Caenorhabditis briggsae] 1.0E-83
blast CAE71138 Hypothetical protein CBG17993 [Caenorhabditis briggsae] 2.0E-83
Protein Domains
Database ID Description E-Value
Pfam IPR000195 EMBL-EBI RabGAP/TBC domain 5.8E-6
Pfam IPR000195 EMBL-EBI RabGAP/TBC domain 5.8E-6
Sequence
Target Sequence 
>C. ELEGANS:190483_AT
acttttcacatatcacggttgctggaagcagtcatccaaacagaactcaacgtcctcaaa
gacctccagcagcagttaattcaaagaatgatggcgcagagtcaccctcaaccattctcg
cgcttgctccagtatttcaaaaagtgaagaacacaattcgtgatcgttcgaacaccgttt
cgggtccatcttcaccacggagatcaaatgagccgctaagagaaccattgaggactcccc
aaaagaaagataactgggcaaatgaagtacaaatgatggaagagcaggtttcaactctcc
agactcgactgaatgaacaggatatgatgtgttgtcaagtttctaaggcattagaaatat
atgccgaggatgttcgaaatgcgaaatctagtgagctatgcgcagtactttctcaaaatc
ttttggaactcagtaaaacattgatgtccatcaaaactgtccccgttggtacgagtcctc
caaaacatagtcgaaacggaatttctgatattcagccaaagccacgggattcacaaccaa
ttcgacaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTTTTCACATATCACGGTTGCTGG 359 103 1178 Antisense
AACAGAACTCAACGTCCTCAAAGAC 165 135 1216 Antisense
CTCAAAGACCTCCAGCAGCAGTTAA 226 227 1232 Antisense
CGCGCTTGCTCCAGTATTTCAAAAA 176 257 1296 Antisense
TGATCGTTCGAACACCGTTTCGGGT 484 563 1338 Antisense
AAGAGAACCATTGAGGACTCCCCAA 251 111 1395 Antisense
TCAACTCTCCAGACTCGACTGAATG 647 629 1468 Antisense
AGCTATGCGCAGTACTTTCTCAAAA 212 79 1571 Antisense
TTGATGTCCATCAAAACTGTCCCCG 524 703 1618 Antisense
TTCAGCCAAAGCCACGGGATTCACA 574 687 1688 Antisense
GGGATTCACAACCAATTCGACAACA 504 495 1703 Antisense
Sequence Source Affymetrix Proprietary Database