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[189866_s_at] LIM-domain protein

Description B0496.8 /REP_DB=WormBase Gene ID /WP=CE06720 /TR=Q17525 /GB=AAK18879.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=LIM-domain protein
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 70      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 80      6grp_total > 81      4grp_total > 39      6grp_highest_sub > 04      6grp_cgc > 84      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 178
1 2 3 4 range
A 279.8
(3)
P 		108.9
(-3)
P 		125.5
(-2.4)
P 		172.5
(-0.8)
P 		171
B 170.5
(3)
P 		148.6
(1.1)
P 		111.8
(-2.2)
P 		102.3
(-3)
P 		68
C 246.7
(3)
P 		128.6
(-3)
P 		162.8
(-1.3)
P 		185.9
(-0.1)
P 		118
avr 232.3
(3) 		128.7
(-3) 		133.4
(-2.7) 		153.6
(-1.6) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 173
1 2 3 4 5 6 range
A 170.2
(-3)
P 		234.2
(-0.1)
P 		171.3
(-2.9)
P 		300.9
(3)
P 		186.7
(-2.2)
P 		205.1
(-1.4)
P 		131
B 181.9
(-1.4)
P 		215.2
(-0.2)
P 		232.7
(0.5)
P 		301.7
(3)
P 		227.7
(0.3)
P 		137
(-3)
P 		165
C 296.7
(3)
P 		187
(-0.9)
P 		276
(2.3)
P 		182
(-1.1)
P 		252.8
(1.4)
P 		129.1
(-3)
P 		168
avr 216.3
(0.4) 		212.1
(0.2) 		226.7
(1) 		261.5
(3) 		222.4
(0.8) 		157.1
(-3) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 101.9
(3)
P 		23.6
(-3)
P 		32.8
(-2.3)
P 		25.3
(-2.9)
P 		78
B 54.4
(3)
P 		36.7
(-0.3)
P 		25.9
(-2.2)
P 		21.8
(-3)
P 		33
C 81.7
(3)
P 		37
(-2.3)
P 		56.7
(0)
P 		31.3
(-3)
P 		50
avr 79.3
(3) 		32.4
(-2.3) 		38.5
(-1.6) 		26.1
(-3) 		53

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 31.4
(-3)
P 		83.3
(3)
P 		37.3
(-2.3)
P 		76.3
(2.2)
P 		56.3
(-0.1)
P 		49.9
(-0.9)
P 		52
B 63.3
(-1.2)
P 		71.6
(-0)
P 		56.5
(-2.2)
P 		79.9
(1.2)
P 		92.5
(3)
P 		51.1
(-3)
P 		41
C 110
(3)
P 		57.1
(-1.3)
P 		70.3
(-0.2)
P 		36.6
(-3)
P 		81.8
(0.7)
P 		43.2
(-2.5)
P 		73
avr 68.2
(1.2) 		70.7
(1.7) 		54.7
(-1.6) 		64.3
(0.4) 		76.9
(3) 		48.1
(-3) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189866_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9783
Sequence Type Exemplar sequence
Representative Public ID B0496.8 NCBI
Target Description B0496.8 /REP_DB=WormBase Gene ID /WP=CE06720 /TR=Q17525 /GB=AAK18879.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=LIM-domain protein
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_068789(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068789 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-224) (tag-224) mRNA, complete cds. 11/11 None
SNAP00000020648 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7449326:7451427:-1 11/11 None
GENEFINDER00000020658 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7449281:7451427:-1 11/11 None
B0496.8 ENSEMBL cdna:known chromosome:CEL140:IV:7449068:7451429:-1 gene:B0496.8 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:7449331-7451433(-) 99.79 100.0
Public Domain and Genome References
Gene Title LIM-domain protein
Gene Symbol tag-224
Ensembl B0496.8
Entrez Gene 177515 Entrez gene
SwissProt Q17525 EMBL-EBI
WormBase CE06720 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1584462_AT similar to Testin (TESS) cfa
CANINE_2:CFA.11744.1.A1_S_AT similar to Testin (TESS) cfa
CANINE_2:CFA.20051.1.S1_S_AT similar to Testin (TESS) cfa
DROSOPHILA_2:1638678_AT dm
DROSGENOME1:147365_AT dm
CHICKEN:GGA.1325.1.S1_AT testis derived transcript (3 LIM domains) gga
HG-U133_PLUS_2:244870_AT testis derived transcript (3 LIM domains) hs
HG-U133B:244870_AT testis derived transcript (3 LIM domains) hs
HG-U133A:202720_AT testis derived transcript (3 LIM domains) hs
HG-U133_PLUS_2:202720_AT testis derived transcript (3 LIM domains) hs
HG-U133A_2:202720_AT testis derived transcript (3 LIM domains) hs
HG-U133_PLUS_2:202719_S_AT testis derived transcript (3 LIM domains) hs
HG-U133A:202719_S_AT testis derived transcript (3 LIM domains) hs
HG-U133A_2:202719_S_AT testis derived transcript (3 LIM domains) hs
HU35KSUBA:RC_AA127946_AT testis derived transcript (3 LIM domains) hs
HU35KSUBC:RC_AA432162_AT testis derived transcript (3 LIM domains) hs
U133_X3P:G7661665_3P_AT testis derived transcript (3 LIM domains) hs
U133_X3P:G12655188_3P_A_AT testis derived transcript (3 LIM domains) hs
U133_X3P:HS.259274.0.A1_3P_AT testis derived transcript (3 LIM domains) hs
HG-U95AV2:32134_AT testis derived transcript (3 LIM domains) hs
HG-U95C:51009_AT testis derived transcript (3 LIM domains) hs
HG-U95C:66830_AT testis derived transcript (3 LIM domains) hs
HG-U95D:69787_AT testis derived transcript (3 LIM domains) hs
U133_X3P:HS2AFFX.1.259.S1_3P_AT Testis derived transcript (3 LIM domains) hs
HG-U133_PLUS_2:1555392_AT Testis derived transcript (3 LIM domains) hs
MG-U74AV2:101550_AT testis derived transcript mm
MU11KSUBB:X78990_S_AT testis derived transcript mm
MG-U74AV2:101551_S_AT testis derived transcript mm
MOE430A:1424246_A_AT testis derived transcript mm
MOUSE430A_2:1424246_A_AT testis derived transcript mm
MOUSE430_2:1424246_A_AT testis derived transcript mm
MOE430A:1460378_A_AT testis derived transcript mm
MOUSE430A_2:1460378_A_AT testis derived transcript mm
MOUSE430_2:1460378_A_AT testis derived transcript mm
MOE430B:1440649_AT Testis derived transcript, mRNA (cDNA clone MGC:6092 IMAGE:3585670) mm
MOUSE430_2:1440649_AT Testis derived transcript, mRNA (cDNA clone MGC:6092 IMAGE:3585670) mm
MU19KSUBA:TC24783_S_AT Testis derived transcript, mRNA (cDNA clone MGC:6092 IMAGE:3585670) mm
MU19KSUBB:TC31182_S_AT Testis derived transcript, mRNA (cDNA clone MGC:6092 IMAGE:3585670) mm
RG-U34C:RC_AI236772_AT similar to Testis derived transcript rn
RG-U34C:RC_AI177869_AT similar to Testis derived transcript rn
RAE230A:1389409_AT similar to Testis derived transcript rn
RAT230_2:1389409_AT similar to Testis derived transcript rn
RAE230B:1383401_AT similar to Testis derived transcript rn
RAT230_2:1383401_AT similar to Testis derived transcript rn
RAE230B:1385706_AT Similar to Testis derived transcript rn
RAT230_2:1385706_AT Similar to Testis derived transcript rn
RG-U34B:RC_AA956328_AT Similar to Testis derived transcript rn
Protein Similarities
Method ID Description E-Value
blast AAK18879 Temporarily assigned gene name protein 224 [Caenorhabditis elegans] ref|NP_501190.1| Temporarily Assigned Gene name family member (tag-224) [Caenorhabditis elegans] 0.0
blast CAE61882 Hypothetical protein CBG05868 [Caenorhabditis briggsae] 0.0
blast AAR16239 testis derived transcript [Gallus gallus] ref|NP_989954.1| testin [Gallus gallus] emb|CAC42398.1| hypothetical protein [Gallus gallus] 1.0E-73
Protein Domains
Database ID Description E-Value
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 3.3E-8
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 2.7E-13
Pfam IPR010442 EMBL-EBI PET 1.7E-50
Sequence
Target Sequence 
>C. ELEGANS:189866_S_AT
atcatccgaattgtttccgttgtgaaacatgtcgtcaattattggttgacaatatttatt
tcttctacaaaaataaatattactgtggtagacattatgctgatcaactttatccaagat
gtgcgggatgtgatgagctcatcttcgccaacgagtacacatttgccgaagagaaatcat
ggcattttgatcattttgcctgttataagtgtgattttaaattaggaggatcgaggtata
tgacaagagatgaaaatccattctgcttggattgttatctcaaacatttcgcaaagacct
gcgacacgtgtcaatcaaaaatcggacccgacgagaagcgtctaaactacaatgaaactc
actggcacgccgaggaacgatgttttcaatgtgttcagtgtaagatgaacttaatcggaa
agaaattcatgctcaaaaaccataaactattgtgctcatcccagtgtaaagctaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCATCCGAATTGTTTCCGTTGTGA 345 29 902 Antisense
ATGTGATGAGCTCATCTTCGCCAAC 312 49 1029 Antisense
TCGCCAACGAGTACACATTTGCCGA 292 599 1046 Antisense
TTTGATCATTTTGCCTGTTATAAGT 11 669 1087 Antisense
CATTCTGCTTGGATTGTTATCTCAA 306 217 1160 Antisense
GCAAAGACCTGCGACACGTGTCAAT 619 317 1192 Antisense
AATCGGACCCGACGAGAAGCGTCTA 203 169 1221 Antisense
CAATGAAACTCACTGGCACGCCGAG 384 181 1251 Antisense
GGCACGCCGAGGAACGATGTTTTCA 674 523 1265 Antisense
AACCATAAACTATTGTGCTCATCCC 644 147 1339 Antisense
TGTGCTCATCCCAGTGTAAAGCTAA 114 557 1352 Antisense
Sequence Source Affymetrix Proprietary Database