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[192685_at] Src homology domain 3 (3 domains)

Description Y45F10D.13 /REP_DB=WormBase Gene ID /WP=CE16651 /TR=O62482 /GB=CAA16388.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Src homology domain 3 (3 domains)
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 13      4grp_high_8_8 > 51      6grp_highest_nonorm > 31      6grp_total > 24      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 792
1 2 3 4 range
A 921.8
(3)
P 		907.2
(2.8)
P 		844
(2.2)
P 		338.1
(-3)
A 		584
B 986.5
(3)
P 		942
(2.6)
P 		718.9
(0.7)
P 		292.1
(-3)
P 		694
C 1059.2
(3)
P 		819.6
(1.2)
P 		833.8
(1.3)
P 		267.2
(-3)
P 		792
avr 989.2
(3) 		889.6
(2.1) 		798.9
(1.3) 		299.1
(-3) 		690

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1319
1 2 3 4 5 6 range
A 1398.6
(3)
P 		1139.3
(1.5)
P 		753.1
(-0.6)
P 		585.1
(-1.6)
P 		530.9
(-1.9)
P 		327.4
(-3)
P 		1071
B 1588.9
(3)
P 		1262.4
(1.5)
P 		1014.6
(0.3)
P 		769.5
(-0.8)
P 		445.4
(-2.3)
P 		294.9
(-3)
P 		1294
C 1162
(1.8)
P 		1374
(3)
P 		986.4
(0.9)
P 		804.6
(-0.1)
P 		351.1
(-2.6)
P 		270
(-3)
P 		1104
avr 1383.2
(3) 		1258.6
(2.3) 		918
(0.4) 		719.7
(-0.7) 		442.5
(-2.2) 		297.4
(-3) 		1086
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 306
1 2 3 4 range
A 335.6
(3)
P 		196.9
(0.1)
P 		220.6
(0.6)
P 		49.5
(-3)
A 		286
B 314.6
(3)
P 		232.6
(1.1)
P 		166.6
(-0.5)
P 		62.2
(-3)
P 		252
C 350.6
(3)
P 		235.7
(0.7)
P 		290.6
(1.8)
P 		45
(-3)
P 		306
avr 333.6
(3) 		221.7
(0.6) 		225.9
(0.7) 		52.2
(-3) 		281

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 473
1 2 3 4 5 6 range
A 257.8
(0.3)
P 		405.2
(3)
P 		164
(-1.4)
P 		148.4
(-1.7)
P 		160.2
(-1.5)
P 		79.7
(-3)
P 		326
B 552.8
(3)
P 		420.2
(1.2)
P 		246.4
(-1.2)
P 		203.8
(-1.7)
P 		180.9
(-2)
P 		110
(-3)
P 		443
C 430.7
(3)
P 		419.2
(2.8)
P 		251.1
(-0.2)
P 		161.8
(-1.7)
P 		113.6
(-2.6)
P 		90.4
(-3)
P 		340
avr 413.8
(3) 		414.9
(3) 		220.5
(-0.6) 		171.3
(-1.5) 		151.6
(-1.9) 		93.4
(-3) 		322
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192685_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9625
Sequence Type Exemplar sequence
Representative Public ID Y45F10D.13 NCBI
Target Description Y45F10D.13 /REP_DB=WormBase Gene ID /WP=CE16651 /TR=O62482 /GB=CAA16388.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Src homology domain 3 (3 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_070252(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070252 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-208) (tag-208) mRNA, complete cds. 11/11 None
SNAP00000025702 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13764579:13770320:1 11/11 None
GENEFINDER00000025728 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13765587:13770320:1 11/11 None
Y45F10D.13 ENSEMBL cdna:known chromosome:CEL140:IV:13763798:13770456:1 gene:Y45F10D.13 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
chrIV:13765790-13770326(+) 96.25 98.29
Public Domain and Genome References
Gene Title Src homology domain 3 (3 domains)
Gene Symbol tag-208
Ensembl Y45F10D.13
Entrez Gene 3565590 Entrez gene
SwissProt O62482 EMBL-EBI
WormBase CE16651 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16388 Hypothetical protein Y45F10D.13 [Caenorhabditis elegans] ref|NP_502653.1| Temporarily Assigned Gene name family member (tag-208) [Caenorhabditis elegans] 0.0
blast CAE74588 Hypothetical protein CBG22368 [Caenorhabditis briggsae] 1.0E-135
blast NP_001014312 hypothetical protein LOC541478 [Danio rerio] gb|AAH91791.1| Hypothetical LOC541478 [Danio rerio] 7.0E-33
Protein Domains
Database ID Description E-Value
scop a.4.5.Replication terminator protein (RTP) All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Replication terminator protein (RTP) 2.70000004768372
Pfam IPR001452 EMBL-EBI SH3 2.0E-17
Pfam IPR001452 EMBL-EBI SH3 1.9E-15
Pfam IPR001452 EMBL-EBI SH3 1.2E-16
Pfam IPR001452 EMBL-EBI SH3 2.0E-17
Pfam IPR001452 EMBL-EBI SH3 1.9E-15
Pfam IPR001452 EMBL-EBI SH3 1.2E-16
Pfam IPR001452 EMBL-EBI SH3 2.0E-17
Pfam IPR001452 EMBL-EBI SH3 1.9E-15
Pfam IPR001452 EMBL-EBI SH3 1.2E-16
Sequence
Target Sequence 
>C. ELEGANS:192685_AT
cacatcccaacaatagtcccgaatcggccaaaaactccgaaaattgaggatcaagtgtat
aatcaagtgtataagccaaatgaaacagtgataatgcaaagtaatcagggatattatgat
aaagcagcggtagtgcctaataataaagtccggttcgatttacccagtggatcggattct
aatttgcaaatgtccctaaacccacatcaaaatcaattccctcctacacatactcaaacc
agcacacaacagccatcaaactatggaatgaagaaaattgaatacgaacgcgaaaaagtt
gttgaagaagtgccaccgatgcatatggatcagtacagaaaactgaatgacgagccgaaa
aatccgaaaaaggatacgaatattctcatgaatgccgcttcgcttattccgaaaggatcc
gagatgtaccgagccgtatatccatatcaaccgcaaaaagaagacgaactccaattgtac
acgaacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACATCCCAACAATAGTCCCGAATC 530 195 646 Antisense
TCCGGTTCGATTTACCCAGTGGATC 675 585 794 Antisense
TGCAAATGTCCCTAAACCCACATCA 186 577 830 Antisense
CACATCAAAATCAATTCCCTCCTAC 681 195 848 Antisense
CTCCTACACATACTCAAACCAGCAC 482 235 866 Antisense
GAAGTGCCACCGATGCATATGGATC 679 335 952 Antisense
AATATTCTCATGAATGCCGCTTCGC 608 173 1024 Antisense
TGCCGCTTCGCTTATTCCGAAAGGA 217 585 1038 Antisense
AGGATCCGAGATGTACCGAGCCGTA 167 53 1059 Antisense
CGAGCCGTATATCCATATCAACCGC 603 249 1075 Antisense
GACGAACTCCAATTGTACACGAACG 164 379 1108 Antisense
Sequence Source Affymetrix Proprietary Database