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[174229_at] Src homology domain 3

Description C30436_rc /REP_DB=TREMBL Accession /GB=C30436 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk247e2 : 3prime end, single read.
Cluster 6grp_total > 46      4grp_total > 16      6grp_cgc > 25      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 5.5
(-3)
A 		9.6
(-2.6)
A 		40.5
(0.5)
A 		66.3
(3)
P 		61
B 8.1
(-3)
A 		30.3
(3)
A 		22.2
(0.8)
A 		29.4
(2.8)
A 		22
C 9.6
(-2.5)
A 		5.8
(-3)
A 		22.2
(-0.7)
A 		48.7
(3)
A 		43
avr 7.7
(-3) 		15.2
(-1.9) 		28.3
(0.1) 		48.1
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 4
(-2)
A 		16.1
(3)
A 		13.5
(1.9)
A 		1.6
(-3)
A 		1.8
(-2.9)
A 		12.1
(1.3)
A 		15
B 21.7
(2.3)
A 		10.4
(-0.7)
A 		13.8
(0.2)
A 		2.9
(-2.7)
A 		1.9
(-3)
A 		24.3
(3)
A 		22
C 23
(1.8)
P 		27.2
(3)
A 		5.9
(-3)
A 		15.6
(-0.3)
A 		8
(-2.4)
A 		11.2
(-1.5)
A 		21
avr 16.2
(2.3) 		17.9
(3) 		11.1
(0.1) 		6.7
(-1.8) 		3.9
(-3) 		15.9
(2.1) 		14
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 2
(-3)
A 		2.1
(-2.9)
A 		10.6
(3)
A 		9.7
(2.4)
P 		9
B 2.6
(-3)
A 		7.5
(3)
A 		5.2
(0.2)
A 		6.3
(1.5)
A 		5
C 3.2
(-1.6)
A 		1.7
(-3)
A 		7.7
(2.5)
A 		8.2
(3)
A 		7
avr 2.6
(-3) 		3.8
(-1.7) 		7.8
(2.7) 		8.1
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 0.7
(-2.7)
A 		5.7
(3)
A 		2.9
(-0.2)
A 		0.4
(-3)
A 		0.6
(-2.8)
A 		2.9
(-0.2)
A 		5
B 7.6
(1.9)
A 		3.5
(-1)
A 		3.4
(-1.1)
A 		0.8
(-3)
A 		0.8
(-3)
A 		9.1
(3)
A 		8
C 8.5
(3)
P 		8.3
(2.8)
A 		1.5
(-3)
A 		3.1
(-1.6)
A 		2.6
(-2.1)
A 		3.7
(-1.1)
A 		7
avr 5.6
(2.7) 		5.8
(3) 		2.6
(-1.3) 		1.4
(-2.9) 		1.3
(-3) 		5.2
(2.2) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174229_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22352
Sequence Type Exemplar sequence
Representative Public ID C30436 NCBI
Target Description C30436_rc /REP_DB=TREMBL Accession /GB=C30436 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk247e2 : 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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_077896
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077896 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-207) (tag-207) mRNA, complete cds. A 
SNAP00000028496 ENSEMBL cdna:SNAP chromosome:CEL140:X:13727222:13729715:1 None
GENEFINDER00000028499 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13727222:13733328:1 None
K11E4.4 ENSEMBL cdna:known chromosome:CEL140:X:13724584:13734269:1 gene:K11E4.4 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000014808 2/11 Cross Hyb Matching Probes None
GENEFINDER00000027864 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13729642-13729921(+) 100.0 100.0
Public Domain and Genome References
Gene Title Src homology domain 3
Gene Symbol tag-207
Ensembl K11E4.4
Entrez Gene 181490 Entrez gene
SwissProt Q21430 EMBL-EBI
WormBase CE18886 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1639115_S_AT rho-type guanine exchange factor dm
HG-U133A:202547_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133A_2:202547_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:202547_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:229642_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133B:229642_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:202548_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-FOCUS:202548_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133A:202548_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133A_2:202548_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HU35KSUBD:RC_N39578_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HU35KSUBD:RC_AA452871_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HUGENEFL:D63476_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:G4505572_3P_A_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS2.377064.1.S1_3P_X_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS.201919.0.A1_3P_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS.172813.0.A1_3P_A_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS.13625.0.A1_3P_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS.117494.0.S1_3P_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:1562270_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:1562271_X_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:236416_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133B:236416_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:239397_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133B:239397_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:242999_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133B:242999_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U95AV2:40828_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U95B:42569_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U95D:69169_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U95E:81222_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS2.435797.1.S1_3P_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS2.280149.1.S1_3P_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS.202402.0.A1_3P_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:1557439_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:1561075_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U95E:69979_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133_PLUS_2:235412_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U133B:235412_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HG-U95E:74610_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HU35KSUBB:RC_T69754_S_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
HU35KSUBD:RC_AA302772_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
U133_X3P:HS.130839.0.A1_3P_AT Rho guanine nucleotide exchange factor (GEF) 7 hs
MOE430A:1449066_A_AT Rho guanine nucleotide exchange factor (GEF7) mm
MOUSE430A_2:1449066_A_AT Rho guanine nucleotide exchange factor (GEF7) mm
MOUSE430_2:1449066_A_AT Rho guanine nucleotide exchange factor (GEF7) mm
MOE430A:1424482_AT Rho guanine nucleotide exchange factor (GEF7) mm
MOUSE430A_2:1424482_AT Rho guanine nucleotide exchange factor (GEF7) mm
MOUSE430_2:1424482_AT Rho guanine nucleotide exchange factor (GEF7) mm
MU11KSUBB:U96634_S_AT Rho guanine nucleotide exchange factor (GEF7) mm
MG-U74AV2:98434_AT Rho guanine nucleotide exchange factor (GEF7) mm
MG-U74BV2:106830_AT Rho guanine nucleotide exchange factor (GEF7) mm
MU19KSUBA:TC23197_S_AT Rho guanine nucleotide exchange factor (GEF7) (Arhgef7), mRNA mm
RG-U34A:RC_AA874918_AT Rho guanine nucleotide exchange factor 7 rn
RAE230A:1368925_A_AT Rho guanine nucleotide exchange factor 7 rn
RAT230_2:1368925_A_AT Rho guanine nucleotide exchange factor 7 rn
RAT230_2:1375702_AT Rho guanine nucleotide exchange factor 7 rn
RAE230A:1375702_AT Rho guanine nucleotide exchange factor 7 rn
RAE230B:1384647_AT Rho guanine nucleotide exchange factor 7 rn
RAT230_2:1384647_AT Rho guanine nucleotide exchange factor 7 rn
RG-U34C:RC_AI071719_AT Rho guanine nucleotide exchange factor 7 rn
Protein Similarities
Method ID Description E-Value
blast CAA94159 Hypothetical protein K11E4.4 [Caenorhabditis elegans] ref|NP_510297.1| Temporarily Assigned Gene name family member (tag-207) [Caenorhabditis elegans] 0.0
blast CAE63090 Hypothetical protein CBG07380 [Caenorhabditis briggsae] 0.0
blast CAE63090 Hypothetical protein CBG07380 [Caenorhabditis briggsae] 1.0E-169
blast NP_059098 Rho guanine nucleotide exchange factor (GEF7) [Mus musculus] gb|AAH44838.1| Rho guanine nucleotide exchange factor (GEF7) [Mus musculus] dbj|BAC35033.1| unnamed protein product [Mus musculus] 4.0E-56
Protein Domains
Database ID Description E-Value
Pfam IPR001452 EMBL-EBI SH3 1.5E-15
Pfam IPR001452 EMBL-EBI SH3 1.5E-15
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510297.1 3 21-43,58-80,144-166
K11E4.4 3 21-43,58-80,144-166
Sequence
Target Sequence 
>C. ELEGANS:174229_AT
agctcgaagaagtgagtgttttcatgttaaccgtgtaaaattggaatgaacagacaatta
tcaaaaatgtcttcgcaacgtttaaccctcaattattttcgattaagttatatttctttt
cgccgcccggttagctcagtcggtagagcaccagactcttaatctggttctcgcgggttc
gagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCGAAGAAGTGAGTGTTTTCAT 576 79 71 Antisense
GAGTGTTTTCATGTTAACCGTGTAA 459 401 84 Antisense
ATTATCAAAAATGTCTTCGCAACGT 241 13 127 Antisense
TCTTCGCAACGTTTAACCCTCAATT 507 615 140 Antisense
TAACCCTCAATTATTTTCGATTAAG 679 149 153 Antisense
GATTAAGTTATATTTCTTTTCGCCG 22 431 171 Antisense
CGCCCGGTTAGCTCAGTCGGTAGAG 378 81 194 Antisense
GCTCAGTCGGTAGAGCACCAGACTC 61 301 204 Antisense
GGTAGAGCACCAGACTCTTAATCTG 214 503 212 Antisense
CAGACTCTTAATCTGGTTCTCGCGG 212 205 222 Antisense
TAATCTGGTTCTCGCGGGTTCGAGC 553 635 230 Antisense
Sequence Source Affymetrix Proprietary Database