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[190906_at] Transthyretin-like family

Description Y5F2A.2 /REP_DB=WormBase Gene ID /WP=CE19023 /TR=Q9XWL1 /GB=CAA21646.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Transthyretin-like family
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 38      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 03      6grp_total > 38      4grp_total > 50      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 950
1 2 3 4 range
A 1397
(-0)
P 		1784.1
(3)
P 		1369.6
(-0.2)
P 		1018
(-3)
P 		766
B 1231.3
(-3)
P 		1774.4
(3)
P 		1545
(0.5)
P 		1290.6
(-2.3)
P 		543
C 1321
(-2.2)
P 		1967.6
(3)
P 		1707.6
(0.9)
P 		1219
(-3)
P 		749
avr 1316.4
(-1.7) 		1842
(3) 		1540.7
(0.3) 		1175.9
(-3) 		666

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4633
1 2 3 4 5 6 range
A 6058.8
(3)
P 		3304
(-1.3)
P 		3063.1
(-1.6)
P 		2188.9
(-3)
P 		2701
(-2.2)
P 		3997.1
(-0.2)
P 		3870
B 6489.9
(3)
P 		3614
(-0.7)
P 		1869.6
(-3)
P 		1857.3
(-3)
P 		2799.2
(-1.8)
P 		4826.3
(0.8)
P 		4633
C 5741.3
(3)
P 		3868.8
(0.1)
P 		1869.5
(-3)
P 		2111.7
(-2.6)
P 		2427.5
(-2.1)
P 		4193.3
(0.6)
P 		3872
avr 6096.7
(3) 		3595.6
(-0.7) 		2267.4
(-2.7) 		2052.6
(-3) 		2642.6
(-2.1) 		4338.9
(0.4) 		4044
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 446
1 2 3 4 range
A 508.6
(3)
P 		387.3
(1)
P 		358
(0.5)
P 		149
(-3)
P 		360
B 392.7
(1.3)
P 		438.2
(3)
P 		358
(0.1)
P 		275
(-3)
P 		163
C 437.3
(0.6)
P 		565.7
(2.5)
P 		595.1
(3)
P 		205.5
(-3)
P 		390
avr 446.2
(2.6) 		463.7
(3) 		437
(2.4) 		209.8
(-3) 		254

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1834
1 2 3 4 5 6 range
A 1116.9
(2.4)
P 		1175.1
(3)
P 		667.1
(-1.9)
P 		555.2
(-3)
P 		815.1
(-0.5)
P 		973.2
(1)
P 		620
B 2258.2
(3)
P 		1202.9
(-0.5)
P 		454
(-3)
P 		491.9
(-2.9)
P 		1137.3
(-0.7)
P 		1799.7
(1.5)
P 		1804
C 2128
(3)
P 		1180.5
(-0.3)
P 		475.8
(-2.8)
P 		424.7
(-3)
P 		785.5
(-1.7)
P 		1403.7
(0.4)
P 		1703
avr 1834.4
(3) 		1186.2
(0.1) 		532.3
(-2.8) 		490.6
(-3) 		912.6
(-1.1) 		1392.2
(1) 		1344
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190906_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9961
Sequence Type Exemplar sequence
Representative Public ID Y5F2A.2 NCBI
Target Description Y5F2A.2 /REP_DB=WormBase Gene ID /WP=CE19023 /TR=Q9XWL1 /GB=CAA21646.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Transthyretin-like family
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_069660(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069660 NCBI Caenorhabditis elegans Y5F2A.2 (Y5F2A.2) mRNA, complete cds. 11/11 None
SNAP00000001504 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11066053:11066996:-1 11/11 None
GENEFINDER00000001511 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11066053:11066996:-1 11/11 None
Y5F2A.2 ENSEMBL cdna:known chromosome:CEL140:IV:11065535:11066998:-1 gene:Y5F2A.2 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:11066058-11067002(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transthyretin-like family
Ensembl Y5F2A.2
Entrez Gene 178003 Entrez gene
SwissProt Q9XWL1 EMBL-EBI
WormBase CE19023 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21646 Hypothetical protein Y5F2A.2 [Caenorhabditis elegans] ref|NP_502061.1| Y5F2A.2 [Caenorhabditis elegans] 1.0E-61
blast CAE61991 Hypothetical protein CBG05999 [Caenorhabditis briggsae] 1.0E-55
blast CAE61990 Hypothetical protein CBG05998 [Caenorhabditis briggsae] 1.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 4.5E-28
Sequence
Target Sequence 
>C. ELEGANS:190906_AT
ttcttttgtcactcgctgtatttgaagtatccgccaaacttcaaaatgtaactgtaaaag
gaattgccgtttgtaacaagagaagaatggctaattcccatgttattctgattgataagg
ataccttggacccaaatgacgaattggctcaaattcataccaacaaggaaggagaattcg
agttgttcggagaggaagatgagattggcaaaattgagccatacattcgtattcatcaca
gttgcaataccaaaccaggatgtgaacgcgtttccgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTTTTGTCACTCGCTGTATTTGA 226 691 35 Antisense
GTCACTCGCTGTATTTGAAGTATCC 634 465 42 Antisense
GTATCCGCCAAACTTCAAAATGTAA 304 453 61 Antisense
AAGGAATTGCCGTTTGTAACAAGAG 181 159 92 Antisense
GGCTAATTCCCATGTTATTCTGATT 117 539 123 Antisense
GGATACCTTGGACCCAAATGACGAA 281 509 153 Antisense
GAATTGGCTCAAATTCATACCAACA 280 323 175 Antisense
ATTGAGCCATACATTCGTATTCATC 607 3 247 Antisense
TACATTCGTATTCATCACAGTTGCA 540 643 256 Antisense
TCACAGTTGCAATACCAAACCAGGA 547 627 270 Antisense
ACCAGGATGTGAACGCGTTTCCGAA 494 85 288 Antisense
Sequence Source Affymetrix Proprietary Database