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[192366_at] Transmembrane and sushi domain

Description K03H1.5 /REP_DB=WormBase Gene ID /WP=CE03459 /TR=SW:P34501 /GB=CAA82664.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Transmembrane and sushi domain
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 67      4grp_highest_8_8 > 22      4grp_high_8_8 > 07      6grp_highest_nonorm > 91      6grp_total > 68      4grp_total > 01      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 922
1 2 3 4 range
A 241.4
(-3)
P 		269.5
(-2.8)
P 		386.5
(-2)
P 		1087.2
(3)
P 		846
B 352.9
(-1.8)
P 		165
(-3)
P 		298.9
(-2.1)
P 		1067.3
(3)
P 		902
C 287.7
(-2.4)
P 		208.2
(-3)
P 		368.7
(-1.8)
P 		1036.5
(3)
P 		828
avr 294
(-2.4) 		214.2
(-3) 		351.4
(-2) 		1063.7
(3) 		850

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 366
1 2 3 4 5 6 range
A 262.9
(1.1)
P 		168.2
(-1.1)
P 		89.7
(-3)
P 		177.7
(-0.9)
P 		155.4
(-1.4)
P 		341.2
(3)
P 		252
B 178.5
(-2.6)
P 		218.9
(-1.8)
P 		159.3
(-3)
P 		159.5
(-3)
P 		179.1
(-2.6)
P 		455.6
(3)
P 		296
C 165.7
(-2.6)
P 		156.5
(-3)
P 		198.4
(-1)
P 		191.6
(-1.4)
P 		158.4
(-2.9)
P 		285.2
(3)
P 		129
avr 202.4
(-1.5) 		181.2
(-2.1) 		149.1
(-3) 		176.3
(-2.2) 		164.3
(-2.6) 		360.7
(3) 		212
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 187
1 2 3 4 range
A 87.9
(-1.2)
P 		58.5
(-3)
P 		101
(-0.5)
P 		159.2
(3)
P 		101
B 112.5
(-0.7)
P 		40.8
(-3)
P 		69.3
(-2.1)
P 		227.4
(3)
P 		187
C 95.2
(-1.2)
P 		59.9
(-3)
P 		128.5
(0.6)
P 		174.8
(3)
P 		115
avr 98.5
(-1) 		53.1
(-3) 		99.6
(-0.9) 		187.1
(3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 48.5
(-0.3)
P 		59.8
(0.8)
P 		19.5
(-3)
P 		45.1
(-0.6)
P 		46.9
(-0.4)
P 		83.1
(3)
P 		64
B 62.1
(-1.9)
P 		72.9
(-1.4)
P 		38.7
(-3)
P 		42.2
(-2.8)
P 		72.8
(-1.4)
P 		169.9
(3)
P 		131
C 61.4
(-0.6)
P 		47.7
(-2)
P 		50.5
(-1.7)
P 		38.5
(-3)
P 		51.3
(-1.7)
P 		95.5
(3)
P 		57
avr 57.3
(-1.4) 		60.1
(-1.2) 		36.2
(-3) 		41.9
(-2.6) 		57
(-1.4) 		116.2
(3) 		80
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192366_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7738
Sequence Type Exemplar sequence
Representative Public ID K03H1.5 NCBI
Target Description K03H1.5 /REP_DB=WormBase Gene ID /WP=CE03459 /TR=SW:P34501 /GB=CAA82664.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Transmembrane and sushi domain
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_066804(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066804 NCBI Caenorhabditis elegans K03H1.5 (K03H1.5) mRNA, complete cds. 11/11 None
GENEFINDER00000019359 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9928995:9939441:1 11/11 None
SNAP00000019343 ENSEMBL cdna:SNAP chromosome:CEL140:III:9932308:9939441:1 11/11 None
K03H1.5 ENSEMBL cdna:known chromosome:CEL140:III:9932308:9939558:1 gene:K03H1.5 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
chrIII:9932303-9939437(+) 100.0 100.0
Public Domain and Genome References
Gene Title Transmembrane and sushi domain
Ensembl K03H1.5
Entrez Gene 176404 Entrez gene
SwissProt P34501 EMBL-EBI
WormBase CE03459 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.21496.1.S1_S_AT similar to sushi domain containing 2 cfa
DROSOPHILA_2:1625278_S_AT dm
DROSGENOME1:152434_AT dm
DROSGENOME1:150930_AT dm
CHICKEN:GGA.19296.1.S1_AT similar to sushi domain containing 2 gga
CHICKEN:GGAAFFX.26617.1.S1_AT similar to sushi domain containing 2 gga
HG-U133_PLUS_2:234310_S_AT sushi domain containing 2 hs
HG-U133B:234310_S_AT sushi domain containing 2 hs
U133_X3P:HS.131819.1.S1_3P_A_AT sushi domain containing 2 hs
U133_X3P:HS.131819.0.S2_3P_AT sushi domain containing 2 hs
HG-U133_PLUS_2:227480_AT sushi domain containing 2 hs
HG-U133B:227480_AT sushi domain containing 2 hs
HG-U95D:73060_AT sushi domain containing 2 hs
HG-U95E:88995_AT sushi domain containing 2 hs
HG-U95D:72757_AT Sushi domain containing 2 hs
MG-U74BV2:110378_AT sushi domain containing 2 mm
MOE430A:1426511_AT sushi domain containing 2 mm
MOUSE430A_2:1426511_AT sushi domain containing 2 mm
MOUSE430_2:1426511_AT sushi domain containing 2 mm
MU19KSUBB:TC32228_AT Sushi domain containing 2 (Susd2), mRNA mm
RAE230B:1398511_AT sushi domain containing 2 (predicted) rn
RAT230_2:1398511_AT sushi domain containing 2 (predicted) rn
RAE230B:1392594_AT Sushi domain containing 2 (predicted) rn
RAT230_2:1392594_AT Sushi domain containing 2 (predicted) rn
RG-U34B:RC_AA901176_AT Sushi domain containing 2 (predicted) rn
RG-U34B:RC_AI007911_AT Sushi domain containing 2 (predicted) rn
RG-U34B:RC_AI045733_AT Sushi domain containing 2 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7160 cell-matrix adhesion inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA82664 Hypothetical protein K03H1.5 [Caenorhabditis elegans] ref|NP_499205.1| K03H1.5 [Caenorhabditis elegans] sp|P34501|YMS5_CAEEL Hypothetical protein K03H1.5 in chromosome III precursor 0.0
blast S41028 hypothetical protein K03H1.4 - Caenorhabditis elegans 0.0
blast CAE65083 Hypothetical protein CBG09941 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010362 EMBL-EBI Nid 1.1E-35
Pfam IPR005533 EMBL-EBI AMOP domain 5.9E-96
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 3.1E-14
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 7.7E-9
Pfam IPR001534 EMBL-EBI Transthyretin-like 1.4E-56
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 4.5E-6
Pfam IPR010362 EMBL-EBI Nid 1.1E-35
Pfam IPR005533 EMBL-EBI AMOP domain 5.9E-96
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 3.1E-14
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 7.7E-9
Pfam IPR000436 EMBL-EBI Sushi domain/SCR domain/CCP module 4.5E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499205.1 2 7-29,1247-1269
K03H1.5 2 7-29,1247-1269
GENEFINDER00000019359 1 1392-1414
SNAP00000019343 2 7-29,1247-1269
Sequence
Target Sequence 
>C. ELEGANS:192366_AT
cagttaatatcctgtggtccacttctcaaaaaagaaggtgtcgtcaaaactccaccggct
gcaaattatttggacggggacaaagttgtattctcgtgtaaaccaaaatactacattcac
ggagacattgaacgtgtgtgtagaaacgggacatggtctccgggatggtgggcgtggtgt
agagatcgaaatttggaatatgcactgaaatggatgactgctttgttatcaatatttgga
ataagtttgatatttgtgatattcttctgcattctgtggaatattaggaaaaagaaacag
gctgcacatgctgaaaggttacaactgaaggaacaatctgatcgattgaataaattggaa
aatgaaagaatatttggaacctctcccgaaaagactccgttaattgaaactgactttcgt
tctaatttcaatatgaatcaaccttcccgaccaattccatctcaacctccaagctctcag
tatagcccgcccgttttcgctgctccgccgccaccttcacaaccgactagacttccgact
tatacaaatgcgatttcacaacaacaacgtcagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGTTAATATCCTGTGGTCCACTTC 511 203 3541 Antisense
GAAGGTGTCGTCAAAACTCCACCGG 263 333 3574 Antisense
AAACTCCACCGGCTGCAAATTATTT 313 127 3587 Antisense
AGAAACGGGACATGGTCTCCGGGAT 522 71 3682 Antisense
TCTCCGGGATGGTGGGCGTGGTGTA 224 467 3697 Antisense
TTGTGATATTCTTCTGCATTCTGTG 168 709 3794 Antisense
AACTGACTTTCGTTCTAATTTCAAT 222 143 3948 Antisense
TCAATATGAATCAACCTTCCCGACC 669 631 3968 Antisense
CAACCTCCAAGCTCTCAGTATAGCC 311 187 4003 Antisense
ACCGACTAGACTTCCGACTTATACA 557 89 4062 Antisense
GCGATTTCACAACAACAACGTCAGT 270 289 4090 Antisense
Sequence Source Affymetrix Proprietary Database