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[187892_at] C. elegans sem-5

Description C14F5.5 /REP_DB=WormBase Gene ID /WP=CE01784 /GEN=sem-5 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=C. elegans sem-5
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 20      4grp_highest_8_8 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 61      6grp_total > 23      4grp_total > 53      6grp_cgc > 20      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 214
1 2 3 4 range
A 380.8
(3)
P 		288.4
(0.3)
P 		259.3
(-0.6)
P 		176.1
(-3)
P 		205
B 378.1
(3)
P 		258
(-2)
P 		337.4
(1.3)
P 		234.2
(-3)
P 		144
C 346.8
(0.7)
P 		389.7
(3)
P 		325.6
(-0.5)
P 		279.1
(-3)
P 		111
avr 368.6
(3) 		312
(0.6) 		307.4
(0.4) 		229.8
(-3) 		139

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 283
1 2 3 4 5 6 range
A 395.3
(2)
P 		409.6
(2.8)
P 		387.3
(1.6)
P 		413.4
(3)
P 		299.1
(-3)
P 		319.7
(-1.9)
P 		114
B 395.9
(-1.4)
P 		434.8
(1)
P 		466.5
(3)
P 		397.3
(-1.3)
P 		405.3
(-0.8)
P 		369.3
(-3)
P 		97
C 582.4
(3)
P 		404.2
(-1.1)
P 		480.8
(0.7)
P 		414.9
(-0.8)
P 		320.8
(-3)
P 		346.2
(-2.4)
P 		262
avr 457.9
(3) 		416.2
(0.8) 		444.9
(2.3) 		408.5
(0.4) 		341.7
(-3) 		345.1
(-2.8) 		116
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 138.7
(3)
P 		62.6
(-1)
P 		67.8
(-0.8)
P 		25.8
(-3)
P 		113
B 120.6
(3)
P 		63.7
(-1.8)
P 		78.2
(-0.6)
P 		49.9
(-3)
P 		71
C 114.8
(3)
P 		112
(2.8)
P 		113.5
(2.9)
P 		47.1
(-3)
P 		68
avr 124.7
(3) 		79.4
(-0.2) 		86.5
(0.3) 		40.9
(-3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 143
1 2 3 4 5 6 range
A 72.9
(-3)
P 		145.7
(3)
P 		84.3
(-2.1)
P 		104.9
(-0.4)
P 		90.3
(-1.6)
P 		77.8
(-2.6)
P 		73
B 137.8
(0.3)
P 		144.7
(1)
P 		113.3
(-2.2)
P 		105.2
(-3)
P 		164.7
(3)
P 		137.7
(0.3)
P 		60
C 215.9
(3)
P 		123.3
(-1.2)
P 		122.4
(-1.2)
P 		83.4
(-3)
P 		103.8
(-2.1)
P 		115.9
(-1.5)
P 		133
avr 142.2
(3) 		137.9
(2.4) 		106.7
(-1.8) 		97.8
(-3) 		119.6
(-0.1) 		110.5
(-1.3) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187892_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17214
Sequence Type Exemplar sequence
Representative Public ID C14F5.5 NCBI
Target Description C14F5.5 /REP_DB=WormBase Gene ID /WP=CE01784 /GEN=sem-5 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=C. elegans sem-5
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_076941(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076941 NCBI Caenorhabditis elegans SEx Muscle abnormal family member (sem-5) (sem-5) mRNA, complete cds. 11/11 None
SNAP00000042707 ENSEMBL cdna:SNAP chromosome:CEL140:X:7960153:7961654:-1 11/11 None
GENEFINDER00000042710 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7960153:7961654:-1 11/11 None
C14F5.5 ENSEMBL cdna:known chromosome:CEL140:X:7959392:7961665:-1 gene:C14F5.5 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
chrX:7960151-7961653(-) 100.0 100.0
Public Domain and Genome References
Gene Title C. elegans sem-5
Gene Symbol sem-5
Ensembl C14F5.5
Entrez Gene 181055 Entrez gene
SwissProt P29355 EMBL-EBI
WormBase CE01784 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.2172.1.S1_AT similar to Growth factor receptor-bound protein 2 (GRB2 adapter protein) (SH2/SH3 adapter GRB2) (Ash protein) cfa
CANINE_2:CFAAFFX.8081.1.S1_S_AT similar to Growth factor receptor-bound protein 2 (GRB2 adapter protein) (SH2/SH3 adapter GRB2) (Ash protein) cfa
DROSOPHILA_2:1625475_S_AT downstream of receptor kinase dm
DROSGENOME1:153747_AT downstream of receptor kinase dm
CHICKEN:GGA.2170.1.S1_AT growth factor receptor-bound protein 2 gga
CHICKEN:GGA.2170.1.S2_AT growth factor receptor-bound protein 2 gga
HG-U133_PLUS_2:215075_S_AT growth factor receptor-bound protein 2 hs
HG-U133A_2:215075_S_AT growth factor receptor-bound protein 2 hs
HG-FOCUS:215075_S_AT growth factor receptor-bound protein 2 hs
HG-U133A:215075_S_AT growth factor receptor-bound protein 2 hs
HG-U133B:223049_AT growth factor receptor-bound protein 2 hs
HG-U133_PLUS_2:223049_AT growth factor receptor-bound protein 2 hs
HU35KSUBA:AA059415_AT growth factor receptor-bound protein 2 hs
HU35KSUBA:HUM_ALU_AT growth factor receptor-bound protein 2 hs
HU35KSUBB:HUM_ALU_AT growth factor receptor-bound protein 2 hs
HU35KSUBC:HUM_ALU_AT growth factor receptor-bound protein 2 hs
HU35KSUBD:HUM_ALU_AT growth factor receptor-bound protein 2 hs
HUGENEFL:HUM_ALU_AT growth factor receptor-bound protein 2 hs
HC-G110:HUM_ALU_AT growth factor receptor-bound protein 2 hs
HU35KSUBA:AA422025_S_AT growth factor receptor-bound protein 2 hs
HU35KSUBB:RC_W81298_AT growth factor receptor-bound protein 2 hs
HG-U95AV2:1565_S_AT growth factor receptor-bound protein 2 hs
HC-G110:1565_S_AT growth factor receptor-bound protein 2 hs
HUGENEFL:M96995_S_AT growth factor receptor-bound protein 2 hs
U133_X3P:G12005510_3P_AT growth factor receptor-bound protein 2 hs
U133_X3P:HS.296381.1.A1_3P_A_AT growth factor receptor-bound protein 2 hs
HG-U95AV2:33855_AT growth factor receptor-bound protein 2 hs
HG-U95B:46217_AT growth factor receptor-bound protein 2 hs
HG-U133_PLUS_2:228572_AT growth factor receptor-bound protein 2 hs
HG-U133B:228572_AT growth factor receptor-bound protein 2 hs
HG-U95C:60393_R_AT Growth factor receptor-bound protein 2 hs
U133_X3P:HS.6289.1.A1_3P_AT Growth factor receptor-bound protein 2 hs
MU11KSUBA:U07617_S_AT growth factor receptor bound protein 2 mm
MG-U74AV2:101034_AT growth factor receptor bound protein 2 mm
MOE430A:1449111_A_AT growth factor receptor bound protein 2 mm
MOUSE430A_2:1449111_A_AT growth factor receptor bound protein 2 mm
MOUSE430_2:1449111_A_AT growth factor receptor bound protein 2 mm
MOE430A:1418508_A_AT growth factor receptor bound protein 2 mm
MOUSE430A_2:1418508_A_AT growth factor receptor bound protein 2 mm
MOUSE430_2:1418508_A_AT growth factor receptor bound protein 2 mm
MU19KSUBA:TC16768_S_AT Growth factor receptor bound protein 2 (Grb2), mRNA mm
RAE230A:1368385_A_AT growth factor receptor bound protein 2 rn
RAT230_2:1368385_A_AT growth factor receptor bound protein 2 rn
RG-U34A:D49847_AT growth factor receptor bound protein 2 rn
RG-U34A:RC_AI170776_S_AT growth factor receptor bound protein 2 rn
RG-U34A:RC_AA801130_AT growth factor receptor bound protein 2 rn
RAE230A:1370617_AT growth factor receptor bound protein 2 rn
RAT230_2:1370617_AT growth factor receptor bound protein 2 rn
RAE230A:1368386_AT growth factor receptor bound protein 2 rn
RAT230_2:1368386_AT growth factor receptor bound protein 2 rn
RG-U34C:RC_AA858560_AT Growth factor receptor bound protein 2 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5070 SH3/SH2 adaptor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA68405 Sex muscle abnormal protein 5 [Caenorhabditis elegans] ref|NP_509342.1| SEx Muscle abnormal family member (sem-5) [Caenorhabditis elegans] gb|AAB21850.1| cell-signalling [Caenorhabditis elegans] sp|P29355|SEM5_CAEEL Sex muscle abnormal protein 5 prf||1808298A sem-5 gene 1.0E-134
blast CAE70327 Hypothetical protein CBG16856 [Caenorhabditis briggsae] 1.0E-117
blast CAE75376 Hypothetical protein CBG23363 [Caenorhabditis briggsae] 1.0E-101
Protein Domains
Database ID Description E-Value
Pfam IPR000980 EMBL-EBI SH2 motif 3.4E-45
Pfam IPR001452 EMBL-EBI SH3 1.1E-22
Pfam IPR001452 EMBL-EBI SH3 2.5E-26
Sequence
Target Sequence 
>C. ELEGANS:187892_AT
ggattcattccttctaattatattcgtatgactgaatgcaattggtaccttggtaaaata
acaagaaatgacgcagaagtattgctgaaaaagccaaccgtacgtgatggtcatttcctt
gtccgacagtgtgaaagtagtccaggagaattttcgatcagtgttcgattccaagattct
gtacaacatttcaaagttttgcgtgatcaaaatggtaaatattacttgtgggctgtcaaa
ttcaactctttgaatgaattagttgcttatcacagaaccgcttctgtttcgcgtactcac
acaatattgctgtcagatatgaatgtggagactaaatttgtacaggccctgtttgatttc
aacccacaggagagtggagagctagctttcaaaagaggagatgttatcactttgatcaac
aaagacgatccaaactggtgggaaggacagctgaacaacaggcgtggaattttcccatcc
aactacgtatgcccttacaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATTCATTCCTTCTAATTATATTC 410 509 148 Antisense
AAGCCAACCGTACGTGATGGTCATT 150 145 238 Antisense
GTCATTTCCTTGTCCGACAGTGTGA 230 467 257 Antisense
AGTGTTCGATTCCAAGATTCTGTAC 507 59 307 Antisense
TGTGGGCTGTCAAATTCAACTCTTT 198 555 374 Antisense
AGTTGCTTATCACAGAACCGCTTCT 363 65 408 Antisense
TTCTGTTTCGCGTACTCACACAATA 359 693 429 Antisense
GGAGACTAAATTTGTACAGGCCCTG 313 495 474 Antisense
GTACAGGCCCTGTTTGATTTCAACC 278 461 487 Antisense
AGGCGTGGAATTTTCCCATCCAACT 159 55 607 Antisense
ATCCAACTACGTATGCCCTTACAAT 617 37 624 Antisense
Sequence Source Affymetrix Proprietary Database