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[192016_s_at] RNA binding protein

Description R10E9.1 /REP_DB=WormBase Gene ID /WP=CE01050 /GEN=msi-1 /TR=Q21911 /GB=CAA84667.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=RNA binding protein
Cluster 6grp_high1_10_10 > 01      6grp_total > 04      4grp_total > 38      6grp_cgc > 70      6grp_high1_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 292.9
(3)
P 		148.2
(-3)
A 		155.7
(-2.7)
A 		192.1
(-1.2)
A 		145
B 270.5
(3)
P 		196.3
(-0.5)
A 		143.5
(-3)
A 		205.2
(-0.1)
A 		127
C 279.5
(3)
P 		248
(1.5)
P 		160
(-2.8)
M 		156.7
(-3)
P 		123
avr 281
(3) 		197.5
(-0.9) 		153.1
(-3) 		184.7
(-1.5) 		128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 370
1 2 3 4 5 6 range
A 172.2
(-2.4)
P 		341.2
(3)
P 		266.2
(0.6)
P 		268.1
(0.7)
P 		263.1
(0.5)
P 		153.7
(-3)
P 		188
B 431.8
(3)
P 		245.1
(-0.8)
P 		331.7
(0.9)
P 		253.6
(-0.7)
P 		245.9
(-0.8)
P 		139.4
(-3)
A 		292
C 509.7
(3)
P 		238.4
(-1.6)
P 		340.4
(0.2)
P 		220.3
(-1.9)
P 		329.7
(-0)
P 		152.3
(-3)
A 		357
avr 371.2
(3) 		274.9
(0.4) 		312.8
(1.4) 		247.3
(-0.3) 		279.6
(0.5) 		148.5
(-3) 		223
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 106.6
(3)
P 		32.2
(-2.7)
A 		40.7
(-2)
A 		28.1
(-3)
A 		79
B 86.3
(3)
P 		48.5
(-1.3)
A 		33.3
(-3)
A 		43.7
(-1.8)
A 		53
C 92.5
(3)
P 		71.3
(1.1)
P 		55.8
(-0.3)
M 		26.4
(-3)
P 		66
avr 95.1
(3) 		50.7
(-1.3) 		43.3
(-2) 		32.7
(-3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 157
1 2 3 4 5 6 range
A 31.7
(-3)
P 		121.4
(3)
P 		58
(-1.2)
P 		68
(-0.6)
P 		79.4
(0.2)
P 		37.4
(-2.6)
P 		90
B 150.3
(3)
P 		81.6
(-1.2)
P 		80.5
(-1.3)
P 		67.2
(-2.1)
P 		99.9
(-0.1)
P 		52
(-3)
A 		98
C 188.9
(3)
P 		72.7
(-1.8)
P 		86.6
(-1.2)
P 		44.3
(-3)
P 		106.7
(-0.4)
P 		51
(-2.7)
A 		145
avr 123.6
(3) 		91.9
(0.5) 		75
(-0.8) 		59.8
(-2) 		95.3
(0.8) 		46.8
(-3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192016_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6247
Sequence Type Exemplar sequence
Representative Public ID R10E9.1 NCBI
Target Description R10E9.1 /REP_DB=WormBase Gene ID /WP=CE01050 /GEN=msi-1 /TR=Q21911 /GB=CAA84667.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=RNA binding 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_065398(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065398 NCBI Caenorhabditis elegans MuSashI (fly neural) family member (msi-1) (msi-1) mRNA, complete cds. 11/11 A 
SNAP00000008643 ENSEMBL cdna:SNAP chromosome:CEL140:III:3965671:3967281:-1 9/11 None
GENEFINDER00000008650 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3965671:3972690:-1 9/11 None
R10E9.1.1 ENSEMBL cdna:known chromosome:CEL140:III:3964626:3976366:-1 gene:R10E9.1 11/11 None
R10E9.1.2 ENSEMBL cdna:known chromosome:CEL140:III:3965671:3976372:-1 gene:R10E9.1 9/11 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:3965148-3972690(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA binding protein
Gene Symbol msi-1
Ensembl R10E9.1
Entrez Gene 175514 Entrez gene
SwissProt Q21911 EMBL-EBI
WormBase CE29337 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1597783_AT similar to musashi 2 isoform a cfa
CANINE:1597932_AT similar to musashi 2 isoform a cfa
CANINE:1591726_AT similar to musashi 2 isoform a cfa
CANINE_2:CFA.14905.2.A1_A_AT similar to musashi 2 isoform a cfa
CANINE_2:CFA.14905.2.A1_S_AT similar to musashi 2 isoform a cfa
CANINE_2:CFAAFFX.26648.1.S1_AT similar to musashi 2 isoform a cfa
CANINE_2:CFAAFFX.26651.1.S1_AT similar to musashi 2 isoform a cfa
DROSOPHILA_2:1636362_AT dm
DROSOPHILA_2:1641555_AT dm
DROSOPHILA_2:1641701_AT dm
DROSGENOME1:148933_AT dm
CHICKEN:GGAAFFX.26532.1.S1_AT similar to RNA-binding protein Musashi2-L gga
CHICKEN:GGAAFFX.3491.1.S1_AT similar to RNA-binding protein Musashi2-L gga
CHICKEN:GGAAFFX.3493.1.S1_AT similar to RNA-binding protein Musashi2-L gga
U133_X3P:HS2.103512.1.S1_3P_S_AT musashi homolog 2 (Drosophila) hs
U133_X3P:HS.42179.0.A3_3P_AT musashi homolog 2 (Drosophila) hs
U133_X3P:HS.42179.0.A2_3P_A_AT musashi homolog 2 (Drosophila) hs
U133_X3P:HS.42179.0.A1_3P_AT musashi homolog 2 (Drosophila) hs
U133_X3P:HS.103512.0.A1_3P_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:1552364_S_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:225233_AT musashi homolog 2 (Drosophila) hs
HG-U133B:225233_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:225237_S_AT musashi homolog 2 (Drosophila) hs
HG-U133B:225237_S_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:225238_AT musashi homolog 2 (Drosophila) hs
HG-U133B:225238_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:225240_S_AT musashi homolog 2 (Drosophila) hs
HG-U133B:225240_S_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:243010_AT musashi homolog 2 (Drosophila) hs
HG-U133B:243010_AT musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:243579_AT musashi homolog 2 (Drosophila) hs
HG-U133B:243579_AT musashi homolog 2 (Drosophila) hs
HG-U95C:63224_AT musashi homolog 2 (Drosophila) hs
HG-U95C:64973_AT musashi homolog 2 (Drosophila) hs
HG-U95E:77542_AT musashi homolog 2 (Drosophila) hs
HU35KSUBC:RC_AA428576_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS2.434481.1.S1_3P_X_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS2.434481.1.S1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS2.385550.1.S1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS2.382659.1.S1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.41371.0.A1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:1559597_3P_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:1559597_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:1559987_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:1570182_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:239232_AT Musashi homolog 2 (Drosophila) hs
HG-U133B:239232_AT Musashi homolog 2 (Drosophila) hs
HG-U95B:54236_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:226134_S_AT Musashi homolog 2 (Drosophila) hs
HG-U133B:226134_S_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:230894_S_AT Musashi homolog 2 (Drosophila) hs
HG-U133B:230894_S_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:237594_AT Musashi homolog 2 (Drosophila) hs
HG-U133B:237594_AT Musashi homolog 2 (Drosophila) hs
HG-U133_PLUS_2:244646_AT Musashi homolog 2 (Drosophila) hs
HG-U133B:244646_AT Musashi homolog 2 (Drosophila) hs
HG-U95B:45904_AT Musashi homolog 2 (Drosophila) hs
HG-U95C:49714_AT Musashi homolog 2 (Drosophila) hs
HG-U95C:49725_G_AT Musashi homolog 2 (Drosophila) hs
HG-U95C:49974_AT Musashi homolog 2 (Drosophila) hs
HG-U95C:50082_AT Musashi homolog 2 (Drosophila) hs
HG-U95B:52065_S_AT Musashi homolog 2 (Drosophila) hs
HG-U95C:60166_AT Musashi homolog 2 (Drosophila) hs
HG-U95C:66308_AT Musashi homolog 2 (Drosophila) hs
HG-U95E:67414_F_AT Musashi homolog 2 (Drosophila) hs
HG-U95E:67752_AT Musashi homolog 2 (Drosophila) hs
HG-U95D:71528_AT Musashi homolog 2 (Drosophila) hs
HG-U95D:74924_AT Musashi homolog 2 (Drosophila) hs
HG-U95E:75522_AT Musashi homolog 2 (Drosophila) hs
HG-U95E:87761_AT Musashi homolog 2 (Drosophila) hs
HG-U95E:87764_G_AT Musashi homolog 2 (Drosophila) hs
HG-U95D:88375_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBA:N46577_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBC:RC_AA063071_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBC:RC_AA235112_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBC:RC_AA252030_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBC:RC_N26608_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBC:RC_N66818_AT Musashi homolog 2 (Drosophila) hs
HU35KSUBB:RC_H38836_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.143977.0.A1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.173179.0.S1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.276507.0.A1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.42640.0.A1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.42640.1.A1_3P_AT Musashi homolog 2 (Drosophila) hs
U133_X3P:HS.42640.1.A1_3P_X_AT Musashi homolog 2 (Drosophila) hs
MOUSE430_2:1443008_AT Musashi homolog 2 (Drosophila) mm
MOE430B:1443008_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1421230_A_AT Musashi homolog 2 (Drosophila) mm
MOE430A:1421230_A_AT Musashi homolog 2 (Drosophila) mm
MOUSE430A_2:1421230_A_AT Musashi homolog 2 (Drosophila) mm
MG-U74BV2:107527_AT Musashi homolog 2 (Drosophila) mm
MG-U74BV2:116162_G_AT Musashi homolog 2 (Drosophila) mm
MG-U74BV2:116161_AT Musashi homolog 2 (Drosophila) mm
MG-U74BV2:116073_AT Musashi homolog 2 (Drosophila) mm
MG-U74BV2:165049_R_AT Musashi homolog 2 (Drosophila) mm
MOE430B:1435520_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1435520_AT Musashi homolog 2 (Drosophila) mm
MOE430B:1435521_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1435521_AT Musashi homolog 2 (Drosophila) mm
MOE430B:1436818_A_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1436818_A_AT Musashi homolog 2 (Drosophila) mm
MOE430B:1441185_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1441185_AT Musashi homolog 2 (Drosophila) mm
MOE430B:1458136_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1458136_AT Musashi homolog 2 (Drosophila) mm
MOE430A:1421231_AT Musashi homolog 2 (Drosophila) mm
MOUSE430A_2:1421231_AT Musashi homolog 2 (Drosophila) mm
MOUSE430_2:1421231_AT Musashi homolog 2 (Drosophila) mm
MU19KSUBB:TC34357_AT Musashi homolog 2 (Drosophila) (Msi2h), mRNA mm
Protein Similarities
Method ID Description E-Value
blast CAA84667 Hypothetical protein R10E9.1 [Caenorhabditis elegans] ref|NP_497799.1| MuSashI (fly neural) family member (msi-1) [Caenorhabditis elegans] dbj|BAB13470.1| neural RNA-binding protein MSI-1 [Caenorhabditis elegans] 1.0E-180
blast CAE60104 Hypothetical protein CBG03639 [Caenorhabditis briggsae] 1.0E-160
blast CAA84667 Hypothetical protein R10E9.1 [Caenorhabditis elegans] ref|NP_497799.1| MuSashI (fly neural) family member (msi-1) [Caenorhabditis elegans] dbj|BAB13470.1| neural RNA-binding protein MSI-1 [Caenorhabditis elegans] 1.0E-109
blast CAA84667 Hypothetical protein R10E9.1 [Caenorhabditis elegans] ref|NP_497799.1| MuSashI (fly neural) family member (msi-1) [Caenorhabditis elegans] dbj|BAB13470.1| neural RNA-binding protein MSI-1 [Caenorhabditis elegans] 1.0E-108
blast CAE60104 Hypothetical protein CBG03639 [Caenorhabditis briggsae] 2.0E-94
blast CAE60104 Hypothetical protein CBG03639 [Caenorhabditis briggsae] 9.0E-94
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.3E-20
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-18
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-18
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-18
Sequence
Target Sequence 
>C. ELEGANS:192016_S_AT
gaggattcgggttcgtcacatttgatagcgacgaggtagccgataaagtgtgcgaaattc
attttcacgagattaatggaaaaatggtggaatgcaaaaaagcacagccaaaggaggtca
tgcttccggtgcaattaaacaagtcgcgggctgctgcggccagaaatttatatggaatgc
caccagagactctgctcgcctacgcacagtacttgccacgatttggaggaaatttgatgt
atcctaactttacaaatgtgttcaacaacatgccaggaggctattccggtctgagtactc
caggtggttcatccaatcgtccaccccatcaatttgacactgcaagcctctacagcctga
ataatggtggacaactcttggattcacaagcacaaatgttcatgaatcaacagtcctacc
acagtcacagcaatagacgcccctcgcccccctcttctccatcctcaatttactcaagtt
ttttgcgccccatccaaccgacccattttgtccaaagtctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGATTCGGGTTCGTCACATTTGA 96 403 536 Antisense
CAAAGGAGGTCATGCTTCCGGTGCA 144 193 644 Antisense
GAATGCCACCAGAGACTCTGCTCGC 279 331 710 Antisense
CTACGCACAGTACTTGCCACGATTT 200 225 735 Antisense
CATGCCAGGAGGCTATTCCGGTCTG 457 205 804 Antisense
TATTCCGGTCTGAGTACTCCAGGTG 613 663 817 Antisense
ACTCCAGGTGGTTCATCCAATCGTC 650 97 832 Antisense
ATTTGACACTGCAAGCCTCTACAGC 709 17 867 Antisense
ATGAATCAACAGTCCTACCACAGTC 587 43 937 Antisense
TTCTCCATCCTCAATTTACTCAAGT 194 693 990 Antisense
CCGACCCATTTTGTCCAAAGTCTCA 467 261 1033 Antisense
Sequence Source Affymetrix Proprietary Database