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[193276_at] PDZ domain (Also known as DHR or GLGF).

Description Y54G11A.10 /REP_DB=WormBase Gene ID /WP=CE28370 /TR=Q9U245 /GB=CAA22459.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=PDZ domain (Also known as DHR or GLGF).
Cluster 4grp_high_8_8 > 13      6grp_total > 55      4grp_total > 11      6grp_cgc > 46      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 116.6
(0.2)
P 		104
(-1.2)
P 		87.7
(-3)
P 		142.5
(3)
P 		55
B 89.5
(-3)
P 		109.5
(3)
P 		109.1
(2.9)
P 		107.9
(2.5)
P 		20
C 99.8
(-2.9)
P 		100
(-2.9)
P 		98.9
(-3)
P 		158.4
(3)
A 		60
avr 102
(-2.5) 		104.5
(-2.1) 		98.6
(-3) 		136.3
(3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 62.5
(0.1)
P 		43.7
(-1.7)
A 		93.3
(3)
P 		30.1
(-3)
A 		38.9
(-2.2)
A 		45.9
(-1.5)
M 		63
B 57
(0.4)
M 		48.3
(-0.3)
P 		65.7
(1.2)
P 		35
(-1.5)
A 		17.3
(-3)
A 		86.6
(3)
P 		69
C 34.3
(-0.8)
A 		56
(1)
P 		50.5
(0.5)
P 		81.2
(3)
M 		6.7
(-3)
A 		68.9
(2)
P 		75
avr 51.3
(0.7) 		49.3
(0.5) 		69.8
(3) 		48.8
(0.4) 		21
(-3) 		67.1
(2.7) 		49
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 42.5
(3)
P 		22.6
(-2.5)
P 		22.9
(-2.4)
P 		20.9
(-3)
P 		22
B 28.6
(3)
P 		27
(1.3)
P 		25.3
(-0.5)
P 		23
(-3)
P 		6
C 33
(1.8)
P 		28.7
(-1.5)
P 		34.5
(3)
P 		26.7
(-3)
A 		8
avr 34.7
(3) 		26.1
(-1.6) 		27.6
(-0.8) 		23.5
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 11.5
(-1.2)
P 		15.5
(0.7)
A 		20.3
(3)
P 		7.6
(-3)
A 		11.7
(-1.1)
A 		11.2
(-1.3)
M 		13
B 19.8
(0)
M 		16.1
(-0.8)
P 		16
(-0.9)
P 		9.3
(-2.5)
A 		7
(-3)
A 		32.3
(3)
P 		25
C 12.7
(0)
A 		17.1
(1.3)
P 		12.9
(0.1)
P 		16.3
(1)
M 		2.2
(-3)
A 		23.1
(3)
P 		21
avr 14.7
(0) 		16.2
(0.6) 		16.4
(0.7) 		11.1
(-1.4) 		7
(-3) 		22.2
(3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193276_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3833
Sequence Type Exemplar sequence
Representative Public ID Y54G11A.10 NCBI
Target Description Y54G11A.10 /REP_DB=WormBase Gene ID /WP=CE28370 /TR=Q9U245 /GB=CAA22459.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=PDZ domain (Also known as DHR or GLGF).
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_064581(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064581 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-7) (lin-7) mRNA, complete cds. 11/11 None
SNAP00000023658 ENSEMBL cdna:SNAP chromosome:CEL140:II:14347052:14348682:-1 11/11 None
GENEFINDER00000023694 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14347052:14348682:-1 10/11 None
Y54G11A.10 ENSEMBL cdna:known chromosome:CEL140:II:14347052:14349296:-1 gene:Y54G11A.10 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
chrII:14347048-14349293(-) 100.0 100.0
Public Domain and Genome References
Gene Title PDZ domain (Also known as DHR or GLGF).
Gene Symbol lin-7
Ensembl Y54G11A.10
Entrez Gene 175089 Entrez gene
SwissProt Q9U245 EMBL-EBI
WormBase CE28370 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604407_AT similar to lin-7 homolog C cfa
CANINE_2:CFA.626.1.S1_AT similar to lin-7 homolog C cfa
CANINE_2:CFAAFFX.15960.1.S1_S_AT similar to lin-7 homolog C cfa
DROSOPHILA_2:1626763_A_AT dm
DROSGENOME1:150550_AT dm
CHICKEN:GGA.4601.1.S1_AT lin-7 homolog C (C. elegans) gga
CHICKEN:GGAAFFX.7717.1.S1_AT lin-7 homolog C (C. elegans) gga
HG-U133A:221568_S_AT lin-7 homolog C (C. elegans) hs
HG-U133_PLUS_2:221568_S_AT lin-7 homolog C (C. elegans) hs
HG-U133A_2:221568_S_AT lin-7 homolog C (C. elegans) hs
HG-U133_PLUS_2:219399_AT lin-7 homolog C (C. elegans) hs
HG-U133A:219399_AT lin-7 homolog C (C. elegans) hs
HG-FOCUS:219399_AT lin-7 homolog C (C. elegans) hs
HG-U133A_2:219399_AT lin-7 homolog C (C. elegans) hs
HU35KSUBC:RC_AA453650_F_AT lin-7 homolog C (C. elegans) hs
HU35KSUBD:RC_AA206784_AT lin-7 homolog C (C. elegans) hs
HU35KSUBD:RC_H73337_F_AT lin-7 homolog C (C. elegans) hs
HU35KSUBD:RC_D59668_F_AT lin-7 homolog C (C. elegans) hs
U133_X3P:G8922943_3P_AT lin-7 homolog C (C. elegans) hs
U133_X3P:HS.91393.0.S1_3P_A_AT lin-7 homolog C (C. elegans) hs
HG-U133_PLUS_2:223350_X_AT lin-7 homolog C (C. elegans) hs
HG-U133B:223350_X_AT lin-7 homolog C (C. elegans) hs
HG-U95C:48694_AT lin-7 homolog C (C. elegans) hs
HG-U95E:71246_AT lin-7 homolog C (C. elegans) hs
MOUSE430_2:1418898_AT lin 7 homolog c (C. elegans) mm
MOE430A:1418898_AT lin 7 homolog c (C. elegans) mm
MOUSE430A_2:1418898_AT lin 7 homolog c (C. elegans) mm
MG-U74AV2:103370_AT lin 7 homolog c (C. elegans) mm
MG-U74BV2:116147_AT lin 7 homolog c (C. elegans) mm
MG-U74CV2:129311_AT lin 7 homolog c (C. elegans) mm
MG-U74AV2:161086_AT lin 7 homolog c (C. elegans) mm
MOE430A:1423322_AT lin 7 homolog c (C. elegans) mm
MOUSE430A_2:1423322_AT lin 7 homolog c (C. elegans) mm
MOUSE430_2:1423322_AT lin 7 homolog c (C. elegans) mm
MOE430A:1450937_AT lin 7 homolog c (C. elegans) mm
MOUSE430A_2:1450937_AT lin 7 homolog c (C. elegans) mm
MOUSE430_2:1450937_AT lin 7 homolog c (C. elegans) mm
MOE430A:1449262_S_AT lin 7 homolog c (C. elegans) mm
MOUSE430A_2:1449262_S_AT lin 7 homolog c (C. elegans) mm
MOUSE430_2:1449262_S_AT lin 7 homolog c (C. elegans) mm
MU19KSUBB:TC33845_AT Lin 7 homolog c (C. elegans), mRNA (cDNA clone IMAGE:3501062) mm
MU19KSUBB:TC34767_AT Lin 7 homolog c (C. elegans), mRNA (cDNA clone IMAGE:3501062) mm
MU19KSUBC:TC41670_AT Lin 7 homolog c (C. elegans), mRNA (cDNA clone IMAGE:3501062) mm
RG-U34A:AF090136_AT lin-7 homolog C (C. elegans) rn
RAE230A:1369610_AT lin-7 homolog C (C. elegans) rn
RAT230_2:1369610_AT lin-7 homolog C (C. elegans) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
30054 cell junction inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from electronic annotation QuickGO AmiGO
5102 receptor binding inferred from direct assay QuickGO AmiGO
8022 protein C-terminus binding inferred from physical interaction QuickGO AmiGO
30674 protein binding, bridging inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA22459 Hypothetical protein Y54G11A.10 [Caenorhabditis elegans] ref|NP_496982.1| abnormal cell LINeage family member (lin-7) [Caenorhabditis elegans] 1.0E-161
blast AAB36684 LIN-7 [Caenorhabditis elegans] 1.0E-160
blast CAE65929 Hypothetical protein CBG11102 [Caenorhabditis briggsae] 1.0E-144
blast CAA22459 Hypothetical protein Y54G11A.10 [Caenorhabditis elegans] ref|NP_496982.1| abnormal cell LINeage family member (lin-7) [Caenorhabditis elegans] 3.0E-92
blast AAB36684 LIN-7 [Caenorhabditis elegans] 1.0E-91
blast CAA22459 Hypothetical protein Y54G11A.10 [Caenorhabditis elegans] ref|NP_496982.1| abnormal cell LINeage family member (lin-7) [Caenorhabditis elegans] 1.0E-90
blast AAB36684 LIN-7 [Caenorhabditis elegans] 4.0E-90
Protein Domains
Database ID Description E-Value
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 1.2E-17
Pfam IPR004172 EMBL-EBI L27 domain 1.4E-19
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 8.7E-21
Pfam IPR004172 EMBL-EBI L27 domain 1.4E-19
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 3.6E-18
Sequence
Target Sequence 
>C. ELEGANS:193276_AT
ggacgttcagcgtattctagagctcatggagcacgttcagaagactggagaggtcaataa
tgcaaaattggcatcgctgcagcaggtgctacaatccgaatttttcggtgccgtccgaga
ggtctatgagactgtttatgaatcaattgatgcggatacaacgccagagataaaagccgc
cgcaacagctaaagcaacagtggcggcgtttgctgcagccgaaggccacgcgcatccacg
tatcgttgagctcccaaaaaccgatcaagggcttggattcaatgttatgggcggcaagga
gcaaaattcaccgatttacatctccagaataatccctggtggcgtagccgacagacacgg
aggtctcaaacgaggcgatcaacttattgcggtcaacggagtgaacgtggaagccgaatg
ccacgaaaaagcagttgatcttctgaaatccgcagtcggaagtgtaaagctagtgatccg
ttatatgccgaaactcctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACGTTCAGCGTATTCTAGAGCTC 224 523 369 Antisense
AAATTGGCATCGCTGCAGCAGGTGC 457 115 433 Antisense
GCAGGTGCTACAATCCGAATTTTTC 621 309 450 Antisense
TTTTCGGTGCCGTCCGAGAGGTCTA 98 677 470 Antisense
TAAAAGCCGCCGCAACAGCTAAAGC 4 641 539 Antisense
GTATCGTTGAGCTCCCAAAAACCGA 626 443 608 Antisense
AATTCACCGATTTACATCTCCAGAA 594 175 673 Antisense
TGGTGGCGTAGCCGACAGACACGGA 442 551 705 Antisense
GAGGCGATCAACTTATTGCGGTCAA 114 407 740 Antisense
TGATCTTCTGAAATCCGCAGTCGGA 462 565 804 Antisense
GATCCGTTATATGCCGAAACTCCTG 222 411 843 Antisense
Sequence Source Affymetrix Proprietary Database