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[193781_at] SD22 like protein

Description T11G6.8 /REP_DB=WormBase Gene ID /WP=CE06432 /TR=Q22412 /GB=CAA93419.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
Cluster 6grp_high1_10_10 > 86      4grp_highest_8_8 > 61      4grp_high_8_8 > 17      6grp_total > 86      4grp_total > 30      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 200.1
(3)
P 		134.4
(-0.1)
P 		71.1
(-3)
P 		177.7
(2)
P 		129
B 206.7
(3)
P 		95.9
(-3)
P 		149.4
(-0.1)
P 		146.9
(-0.2)
P 		111
C 228.6
(3)
P 		162.1
(-0.2)
P 		103.5
(-3)
P 		177.7
(0.6)
P 		125
avr 211.8
(3) 		130.8
(-1.7) 		108
(-3) 		167.4
(0.4) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 125
1 2 3 4 5 6 range
A 84.1
(-3)
M 		125.7
(-1)
P 		119.5
(-1.3)
P 		149.7
(0.2)
P 		106.6
(-1.9)
P 		208.8
(3)
P 		125
B 89.9
(-3)
P 		122.7
(0.2)
P 		118.3
(-0.3)
P 		113.8
(-0.7)
P 		151.9
(3)
P 		145.9
(2.4)
P 		62
C 135.7
(-0.9)
P 		131.3
(-1.3)
P 		168.2
(1.8)
P 		111.1
(-3)
P 		182.5
(3)
P 		163.4
(1.4)
P 		71
avr 103.2
(-3) 		126.6
(-1) 		135.3
(-0.2) 		124.9
(-1.1) 		147
(0.8) 		172.7
(3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 72.9
(3)
P 		29.2
(-1.8)
P 		18.6
(-3)
P 		26
(-2.2)
P 		54
B 65.9
(3)
P 		23.7
(-3)
P 		34.6
(-1.5)
P 		31.3
(-1.9)
P 		42
C 75.7
(3)
P 		46.6
(-0.8)
P 		36.1
(-2.2)
P 		30
(-3)
P 		46
avr 71.5
(3) 		33.2
(-2.4) 		29.8
(-2.9) 		29.1
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 15.5
(-3)
M 		44.7
(2)
P 		26
(-1.2)
P 		38
(0.8)
P 		32.2
(-0.2)
P 		50.8
(3)
P 		35
B 31.3
(-2.5)
P 		40.8
(-0.8)
P 		28.7
(-3)
P 		30.2
(-2.7)
P 		61.7
(3)
P 		54.4
(1.7)
P 		33
C 50.3
(1.6)
P 		40.1
(-0.1)
P 		42.8
(0.3)
P 		22.3
(-3)
P 		59.1
(3)
P 		54.7
(2.3)
P 		37
avr 32.4
(-2.4) 		41.9
(0) 		32.5
(-2.4) 		30.2
(-3) 		51
(2.4) 		53.3
(3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193781_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10249
Sequence Type Exemplar sequence
Representative Public ID T11G6.8 NCBI
Target Description T11G6.8 /REP_DB=WormBase Gene ID /WP=CE06432 /TR=Q22412 /GB=CAA93419.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP 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_069615(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069615 NCBI Caenorhabditis elegans F13E9.1 (F13E9.1) mRNA, complete cds. 10/11 None
SNAP00000000770 ENSEMBL cdna:SNAP chromosome:CEL140:IV:10864302:10865216:1 10/11 None
GENEFINDER00000000772 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10864302:10865216:1 10/11 None
F13E9.1 ENSEMBL cdna:known chromosome:CEL140:IV:10864302:10873579:1 gene:F13E9.1 10/11 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
chrIV:10861389-10865261(+) 96.86 100.0
Public Domain and Genome References
Gene Title SD22 like protein
Ensembl F13E9.1
Entrez Gene 177981 Entrez gene
SwissProt Q19407 EMBL-EBI
WormBase CE33773 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604217_AT similar to nischarin cfa
CANINE_2:CFA.4335.1.S1_AT similar to nischarin cfa
CANINE_2:CFAAFFX.14812.1.S1_S_AT similar to nischarin cfa
CANINE_2:CFAAFFX.14821.1.S1_AT similar to nischarin cfa
CANINE_2:CFAAFFX.14821.1.S1_S_AT similar to nischarin cfa
DROSOPHILA_2:1628627_AT dm
DROSGENOME1:141574_AT dm
CHICKEN:GGA.15836.1.S1_S_AT similar to KIAA0975 protein gga
CHICKEN:GGA.3001.1.S1_AT similar to KIAA0975 protein gga
CHICKEN:GGAAFFX.24344.1.S1_S_AT similar to KIAA0975 protein gga
HG-U133A:201591_S_AT nischarin hs
HG-U133_PLUS_2:201591_S_AT nischarin hs
HG-FOCUS:201591_S_AT nischarin hs
HG-U133A_2:201591_S_AT nischarin hs
HG-U133_PLUS_2:227392_AT nischarin hs
HG-U133B:227392_AT nischarin hs
HU35KSUBA:RC_AA425921_AT nischarin hs
HU35KSUBA:RC_AA426454_S_AT nischarin hs
HU35KSUBD:RC_R61742_S_AT nischarin hs
U133_X3P:G6005787_3P_S_AT nischarin hs
U133_X3P:HS.285418.0.S1_3P_AT nischarin hs
HG-U95AV2:33916_AT nischarin hs
HG-U95B:44768_AT nischarin hs
HG-U95D:72930_AT nischarin hs
RG-U34C:RC_AI171232_AT nischarin (predicted) rn
RAE230A:1371558_AT nischarin (predicted) rn
RAT230_2:1371558_AT nischarin (predicted) rn
RAE230B:1394957_AT nischarin (predicted) rn
RAT230_2:1394957_AT nischarin (predicted) rn
RAE230B:1384342_AT nischarin (predicted) rn
RAT230_2:1384342_AT nischarin (predicted) rn
RAE230A:1374566_AT Nischarin (predicted) rn
RAT230_2:1374566_AT Nischarin (predicted) rn
RAE230B:1382686_AT Nischarin (predicted) rn
RAT230_2:1382686_AT Nischarin (predicted) rn
RG-U34B:RC_AA943911_AT Nischarin (predicted) rn
RG-U34C:RC_AI101946_AT Nischarin (predicted) rn
RG-U34C:RC_AI237243_AT Nischarin (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93405 Hypothetical protein F13E9.1 [Caenorhabditis elegans] emb|CAD89747.1| Hypothetical protein F13E9.1 [Caenorhabditis elegans] ref|NP_502016.2| F13E9.1 [Caenorhabditis elegans] 0.0
blast CAE70832 Hypothetical protein CBG17612 [Caenorhabditis briggsae] 1.0E-104
blast AAH91939 Si:ch211-103f16.1 protein [Danio rerio] 9.0E-74
blast CAA93405 Hypothetical protein F13E9.1 [Caenorhabditis elegans] emb|CAD89747.1| Hypothetical protein F13E9.1 [Caenorhabditis elegans] ref|NP_502016.2| F13E9.1 [Caenorhabditis elegans] 2.0E-64
blast CAE70834 Hypothetical protein CBG17614 [Caenorhabditis briggsae] 2.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.024
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.01
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001683 EMBL-EBI Phox-like 1.7E-13
Sequence
Target Sequence 
>C. ELEGANS:193781_AT
gcgccaagggtgacatggccttactaaatatacaggcagtatcacctcaaatggatgcaa
atttcaatgcgaaaattttgaattttagaatgattgatgaaggaaagtatacggtatatc
gtatccaaatcacagttgacacctacacttggaccgttgaacgacgttatagtgattttg
acgcttacgatgtacatcgatttctagatcgaaagaaatcatttcttcctccaaagaaac
gactgggaaacaaggatctcgaatttatcgaagaacgacgacttgaattggagaagtatg
ttcgagctcttttggaattagaagtttggtatcaaaagcagaagaatgtgcattcgcttc
cgttgattacagcgaagtttttcgattttcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGCCAAGGGTGACATGGCCTTACT 546 287 1553 Antisense
GGCAGTATCACCTCAAATGGATGCA 150 537 1587 Antisense
GGTATATCGTATCCAAATCACAGTT 60 505 1665 Antisense
ATCACAGTTGACACCTACACTTGGA 217 27 1681 Antisense
CCTACACTTGGACCGTTGAACGACG 686 261 1694 Antisense
TATAGTGATTTTGACGCTTACGATG 277 659 1720 Antisense
AATCATTTCTTCCTCCAAAGAAACG 343 167 1769 Antisense
GAAGTATGTTCGAGCTCTTTTGGAA 317 337 1845 Antisense
AAGAATGTGCATTCGCTTCCGTTGA 134 153 1894 Antisense
TGCATTCGCTTCCGTTGATTACAGC 582 579 1901 Antisense
ACAGCGAAGTTTTTCGATTTTCATC 574 107 1921 Antisense
Sequence Source Affymetrix Proprietary Database