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[194221_x_at] Caldesmon-like repeats

Description C45192 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T05G5.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C45192 /WB_GENE_ID=T05G5.1 /WP=CE21151 /CHR=3 /FEA=Genomic Cluster /DEF=Caldesmon-like repeats; C.elegans cDNA clone yk389f9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 21      4grp_highest_8_8 > 40      4grp_high_8_8 > 43      6grp_highest_nonorm > 32      6grp_total > 41      4grp_total > 52      6grp_highest_sub > 03_04      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1148
1 2 3 4 range
A 1621.7
(2.4)
P 		1731.1
(3)
P 		1046.9
(-0.8)
P 		658.2
(-3)
P 		1073
B 1562.9
(3)
P 		1475
(2.5)
P 		1114.9
(0.3)
P 		583.1
(-3)
P 		980
C 1627.9
(2.6)
P 		1693
(3)
P 		1370
(1.2)
P 		588.9
(-3)
P 		1104
avr 1604.2
(2.8) 		1633
(3) 		1177.3
(0.3) 		610.1
(-3) 		1023

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 894
1 2 3 4 5 6 range
A 1223.1
(1.5)
P 		1358.6
(2.5)
P 		1420.4
(3)
P 		1125.8
(0.7)
P 		889.6
(-1.2)
P 		655.9
(-3)
P 		765
B 1176.3
(1.7)
P 		1224.7
(2.1)
P 		1336.9
(3)
P 		1327.8
(2.9)
P 		805.1
(-1.4)
P 		618.3
(-3)
P 		719
C 1229.7
(1.9)
P 		1154.8
(1.4)
P 		1328.5
(2.6)
P 		1391.1
(3)
P 		740.7
(-1.5)
P 		526
(-3)
P 		865
avr 1209.7
(1.8) 		1246
(2.1) 		1361.9
(3) 		1281.6
(2.4) 		811.8
(-1.3) 		600.1
(-3) 		762
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 494
1 2 3 4 range
A 590.5
(3)
P 		375.8
(0.4)
P 		273.7
(-0.8)
P 		96.3
(-3)
P 		494
B 498.4
(3)
P 		364.3
(0.8)
P 		258.3
(-0.9)
P 		124.3
(-3)
P 		374
C 538.9
(3)
P 		486.7
(2.3)
P 		477.5
(2.2)
P 		99.3
(-3)
P 		440
avr 542.6
(3) 		408.9
(1.2) 		336.5
(0.2) 		106.6
(-3) 		436

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 324
1 2 3 4 5 6 range
A 225.5
(-1.8)
P 		483.2
(3)
P 		309.3
(-0.2)
P 		285.5
(-0.7)
P 		268.5
(-1)
P 		159.7
(-3)
P 		324
B 409.3
(3)
P 		407.7
(2.9)
P 		324.6
(0.2)
P 		351.7
(1.1)
P 		327.1
(0.2)
P 		230.6
(-3)
P 		179
C 455.8
(3)
P 		352.4
(0.8)
P 		338.1
(0.5)
P 		279.8
(-0.8)
P 		239.7
(-1.6)
P 		176.1
(-3)
P 		280
avr 363.5
(1.6) 		414.4
(3) 		324
(0.6) 		305.7
(0.1) 		278.4
(-0.6) 		188.8
(-3) 		226
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194221_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24263
Sequence Type Exemplar sequence
Representative Public ID C45192 NCBI
Target Description C45192 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T05G5.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C45192 /WB_GENE_ID=T05G5.1 /WP=CE21151 /CHR=3 /FEA=Genomic Cluster /DEF=Caldesmon-like repeats; C.elegans cDNA clone yk389f9 : 5prime 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 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_066750(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066750 NCBI Caenorhabditis elegans T05G5.1 (T05G5.1) mRNA, complete cds. 10/11 None
T05G5.1 ENSEMBL cdna:known chromosome:CEL140:III:9739002:9743234:-1 gene:T05G5.1 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019875 2/11 Cross Hyb Matching Probes None
GENEFINDER00000019891 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:9739061-9743228(-) 100.0 100.0
Public Domain and Genome References
Gene Title Caldesmon-like repeats
Ensembl T05G5.1
Entrez Gene 3565362 Entrez gene
SwissProt P34554 EMBL-EBI
WormBase CE33540 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA81593 Hypothetical protein T05G5.1 [Caenorhabditis elegans] ref|NP_499151.2| T05G5.1 [Caenorhabditis elegans] sp|P34554|YNP1_CAEEL Hypothetical protein T05G5.1 in chromosome III precursor 1.0E-141
blast CAE65143 Hypothetical protein CBG10009 [Caenorhabditis briggsae] 4.0E-91
blast S41001 hypothetical protein T05G5.1 - Caenorhabditis elegans 2.0E-72
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499151.2 1 5-27
T05G5.1 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:194221_X_AT
gagttttggcaatttgttcccatttttaaaactgattattttttggtacattgggaaaga
aaaaaaagattgctgaagccgatgaatacggtatggaagaaggtacagaaggatggatga
tggtgaaaaaagaaaatgaaaatgcagcggttggaactacagtatccttgattactgtaa
ctttcctattcacacttatcttctaaatatcatgaaaaaagtattctcaaactcccagtt
tccctgttaagtaccaaatgttctgccttattttctagtttcacgggtttcttttcattg
aatttatcacacctacttttgctcatttcctttcattttcctaactcatatctcactttt
tt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGTTTTGGCAATTTGTTCCCATTT 309 399 1133 Antisense
GCAGCGGTTGGAACTACAGTATCCT 398 313 1276 Antisense
GTAACTTTCCTATTCACACTTATCT 160 461 1309 Antisense
GAAAAAAGTATTCTCAAACTCCCAG 155 353 1346 Antisense
CAGTTTCCCTGTTAAGTACCAAATG 551 53 1368 Antisense
AAGTACCAAATGTTCTGCCTTATTT 234 157 1381 Antisense
GTTCTGCCTTATTTTCTAGTTTCAC 212 443 1392 Antisense
TAGTTTCACGGGTTTCTTTTCATTG 190 651 1408 Antisense
TTATCACACCTACTTTTGCTCATTT 28 681 1436 Antisense
TTCCTTTCATTTTCCTAACTCATAT 230 701 1459 Antisense
TTCCTAACTCATATCTCACTTTTTT 379 699 1470 Antisense
Sequence Source Affymetrix Proprietary Database