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[190721_s_at] alpha-catenin

Description R13H4.4 /REP_DB=WormBase Gene ID /WP=CE25089 /GEN=hmp-1 /TR=P90947 /GB=CAB61019.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=alpha-catenin
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 46      4grp_highest_8_8 > 40      4grp_high_8_8 > 43      6grp_highest_nonorm > 50      6grp_total > 37      4grp_total > 53      6grp_highest_sub > Cu      6grp_cgc > 16      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 345
1 2 3 4 range
A 527.7
(3)
P 		265.7
(-3)
P 		302.6
(-2.2)
P 		314.2
(-1.9)
P 		262
B 392.6
(-1.4)
P 		610.2
(3)
P 		429.7
(-0.6)
P 		310.4
(-3)
P 		300
C 548.2
(3)
P 		510.8
(2)
P 		512.6
(2.1)
P 		321.9
(-3)
P 		226
avr 489.5
(3) 		462.2
(2.1) 		415
(0.4) 		315.5
(-3) 		174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 406
1 2 3 4 5 6 range
A 639.8
(2.7)
P 		652.1
(3)
P 		439.1
(-1.9)
P 		553.2
(0.7)
P 		391
(-3)
P 		613.7
(2.1)
P 		261
B 732.5
(3)
P 		656.2
(1.7)
P 		410.6
(-2.7)
P 		398.5
(-2.9)
P 		392.5
(-3)
P 		593.9
(0.6)
P 		340
C 624.2
(1.5)
P 		568.3
(0.7)
P 		478.3
(-0.7)
P 		348.8
(-2.7)
P 		326.8
(-3)
P 		720.5
(3)
P 		394
avr 665.5
(3) 		625.5
(2.2) 		442.7
(-1.5) 		433.5
(-1.7) 		370.1
(-3) 		642.7
(2.5) 		295
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 192.1
(3)
P 		57.7
(-2.5)
P 		79.1
(-1.6)
P 		46
(-3)
P 		146
B 125.2
(1.2)
P 		150.7
(3)
P 		99.6
(-0.6)
P 		66.2
(-3)
P 		85
C 181.5
(3)
P 		146.9
(1.4)
P 		178.7
(2.9)
P 		54.3
(-3)
P 		127
avr 166.3
(3) 		118.4
(0.4) 		119.1
(0.4) 		55.5
(-3) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 117.9
(-2)
P 		231.9
(3)
P 		95.6
(-3)
P 		140.3
(-1)
P 		118
(-2)
P 		149.4
(-0.6)
P 		136
B 254.9
(3)
P 		218.4
(1.6)
P 		99.7
(-3)
P 		105.5
(-2.8)
P 		159.5
(-0.7)
P 		221.5
(1.7)
P 		155
C 231.4
(2.7)
P 		173.4
(0.6)
P 		121.7
(-1.2)
P 		70.1
(-3)
P 		105.7
(-1.8)
P 		241.2
(3)
P 		171
avr 201.4
(2.6) 		207.9
(3) 		105.7
(-3) 		105.3
(-3) 		127.7
(-1.7) 		204
(2.8) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190721_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12604
Sequence Type Exemplar sequence
Representative Public ID R13H4.4 NCBI
Target Description R13H4.4 /REP_DB=WormBase Gene ID /WP=CE25089 /GEN=hmp-1 /TR=P90947 /GB=CAB61019.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=alpha-catenin
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_073584(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073584 NCBI Caenorhabditis elegans R13H4.4 (alpha-catenin) mRNA, complete cds. 11/11 A 
SNAP00000036683 ENSEMBL cdna:SNAP chromosome:CEL140:V:11848466:11854358:1 11/11 None
GENEFINDER00000036691 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11848466:11854358:1 11/11 None
R13H4.4 ENSEMBL cdna:known chromosome:CEL140:V:11848465:11854752:1 gene:R13H4.4 11/11 A 
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
chrV:11848465-11854358(+) 100.0 100.0
Public Domain and Genome References
Gene Title alpha-catenin
Gene Symbol hmp-1
Ensembl R13H4.4
Entrez Gene 179624 Entrez gene
SwissProt P90947 EMBL-EBI
WormBase CE25089 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1598149_AT similar to catenin, alpha 2 cfa
CANINE_2:CFA.9512.1.A1_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12905.1.S1_S_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12908.1.S1_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12938.1.S1_AT similar to catenin, alpha 2 cfa
DROSOPHILA_2:1632724_AT Catenin dm
DROSGENOME1:154527_AT Catenin dm
CHICKEN:GGA.2375.1.S1_AT catenin (cadherin-associated protein), alpha 2 gga
CHICKEN:GGA.2375.1.S2_AT catenin (cadherin-associated protein), alpha 2 gga
CHICKEN:GGAAFFX.24818.1.S1_AT catenin (cadherin-associated protein), alpha 2 gga
HG-U95AV2:208_AT catenin (cadherin-associated protein), alpha 2 hs
HC-G110:208_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95AV2:31841_AT catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_R37305_F_AT catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_H16079_F_AT catenin (cadherin-associated protein), alpha 2 hs
HUGENEFL:M94151_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133A:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133_PLUS_2:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-FOCUS:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133A_2:205373_AT catenin (cadherin-associated protein), alpha 2 hs
U133_X3P:G7656998_3P_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95C:54645_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95B:42611_AT Catenin (cadherin-associated protein), alpha 2 hs
HG-U95C:66711_AT Catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBA:AA082824_AT Catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_H10781_AT Catenin (cadherin-associated protein), alpha 2 hs
MOUSE430_2:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MOE430A:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MOUSE430A_2:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MU11KSUBA:D25282_S_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:92228_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:92227_S_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:161318_F_AT catenin (cadherin associated protein), alpha 2 mm
MU19KSUBB:TC25947_S_AT Catenin (cadherin associated protein), alpha 2 (Ctnna2), transcript variant 1, mRNA mm
RG-U34B:RC_AI058441_AT Catenin alpha 2 (predicted) rn
RG-U34C:RC_AI071716_AT Catenin alpha 2 (predicted) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5913 cell-cell adherens junction inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
51015 actin filament binding traceable author statement QuickGO AmiGO
8013 beta-catenin binding inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB61019 Hypothetical protein R13H4.4 [Caenorhabditis elegans] ref|NP_505985.1| R13H4.4 [Caenorhabditis elegans] gb|AAB94551.1| HMP-1 [Caenorhabditis elegans] 0.0
blast T24221 hypothetical protein R13H4.4 - Caenorhabditis elegans 0.0
blast CAE75281 Hypothetical protein CBG23248 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:190721_S_AT
ggatgttatccgagcagcacaagaaatctcacttaatggatcaaaactaaatgcattggc
acggcagattggagaagaaagtgctgattcgcagacgaaaaaggatttgctcgcatattt
gtcacaaatcactctatattgtcagcaactgaatatttgtagtaaggtgaaagctgatgt
gactcaagttggaaatgagcttgtcgtatctgcacttgactctgcaatgtctcttattca
aacggctcgaaatcttttaactgctgttgtacagactgttaaagctgcatacattgccag
taccaagttccgtcgtcctaatgccaacagtgtacgtgtcgagtggcgaatggctccacc
aaagaaacaaccactaattcgaccacaaaagaataatgctataatcagacgggcatccga
acggcgacctttgcaaccagctaaagtgctcgccgagtttacgcgtaacgagattgagac
gggtcgtgatagtgacgacgaggaacttgatcgccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGTTATCCGAGCAGCACAAGAA 244 515 2250 Antisense
GCATTGGCACGGCAGATTGGAGAAG 443 307 2302 Antisense
GGATTTGCTCGCATATTTGTCACAA 24 511 2352 Antisense
AAATCACTCTATATTGTCAGCAACT 319 117 2375 Antisense
CGTCGTCCTAATGCCAACAGTGTAC 494 243 2560 Antisense
GTCGAGTGGCGAATGGCTCCACCAA 219 473 2587 Antisense
GAAACAACCACTAATTCGACCACAA 96 357 2613 Antisense
AATCAGACGGGCATCCGAACGGCGA 509 169 2652 Antisense
TGCAACCAGCTAAAGTGCTCGCCGA 276 577 2681 Antisense
TGCTCGCCGAGTTTACGCGTAACGA 500 581 2696 Antisense
GTGACGACGAGGAACTTGATCGCCG 213 481 2741 Antisense
Sequence Source Affymetrix Proprietary Database