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[172834_x_at] major sperm protein

Description C33F10.9 /REP_DB=WormBase Gene ID /WP=CE02806 /GEN=msp-40 /GB=AAK31477.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=major sperm protein
Cluster 6grp_total > 98      4grp_total > 02      6grp_cgc > 79      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 314
1 2 3 4 range
A 133.7
(-3)
A 		169.2
(-2.3)
A 		202.7
(-1.7)
A 		447.8
(3)
P 		314
B 163.7
(2.4)
A 		166
(3)
A 		162.6
(2.1)
A 		144.3
(-3)
P 		22
C 203.1
(-2)
A 		160.2
(-3)
A 		159.1
(-3)
A 		420.6
(3)
P 		262
avr 166.8
(-2.9) 		165.1
(-3) 		174.8
(-2.7) 		337.6
(3) 		173

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6889
1 2 3 4 5 6 range
A 102.9
(-3)
A 		123.7
(-3)
A 		162.7
(-2.9)
P 		843.6
(-2.3)
P 		4934.7
(1.3)
P 		6812.4
(3)
P 		6710
B 102.8
(-3)
A 		135.1
(-3)
P 		196.9
(-2.9)
A 		576.7
(-2.5)
P 		5354.2
(2.8)
P 		5558.3
(3)
P 		5456
C 107.5
(-3)
A 		214.3
(-2.9)
P 		125.5
(-3)
A 		744.3
(-2.4)
P 		6991.7
(3)
P 		6166.6
(2.3)
P 		6884
avr 104.4
(-3) 		157.7
(-2.9) 		161.7
(-2.9) 		721.5
(-2.4) 		5760.2
(2.6) 		6179.1
(3) 		6075
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 48.7
(-0.5)
A 		36.7
(-3)
A 		53
(0.4)
A 		65.5
(3)
P 		29
B 52.2
(3)
A 		41
(-0.1)
A 		37.7
(-1)
A 		30.7
(-3)
P 		22
C 67.2
(2.1)
A 		46.1
(-3)
A 		55.4
(-0.8)
A 		70.9
(3)
P 		25
avr 56
(3) 		41.3
(-3) 		48.7
(0) 		55.7
(2.9) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2243
1 2 3 4 5 6 range
A 19
(-3)
A 		44
(-2.9)
A 		35.4
(-2.9)
P 		214
(-2.3)
P 		1489.1
(2.4)
P 		1658.6
(3)
P 		1640
B 35.8
(-3)
A 		45
(-3)
P 		47.8
(-3)
A 		152.7
(-2.7)
P 		2175.4
(3)
P 		2072.7
(2.7)
P 		2140
C 39.9
(-3)
A 		65.4
(-2.9)
P 		31.9
(-3)
A 		149.7
(-2.7)
P 		2262.4
(3)
P 		2064.3
(2.5)
P 		2231
avr 31.6
(-3) 		51.5
(-2.9) 		38.4
(-3) 		172.1
(-2.6) 		1975.6
(3) 		1931.9
(2.9) 		1944
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172834_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4161
Sequence Type Exemplar sequence
Representative Public ID C33F10.9 NCBI
Target Description C33F10.9 /REP_DB=WormBase Gene ID /WP=CE02806 /GEN=msp-40 /GB=AAK31477.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=major sperm 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_062464(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062464 NCBI Caenorhabditis elegans Major Sperm Protein family member (msp-40) (msp-40) mRNA, complete cds. 11/11 None
SNAP00000016470 ENSEMBL cdna:SNAP chromosome:CEL140:II:4825401:4825784:1 11/11 None
GENEFINDER00000016484 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4825401:4825784:1 11/11 None
C33F10.9 ENSEMBL cdna:known chromosome:CEL140:II:4825401:4825784:1 gene:C33F10.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_062487 2/11 Cross Hyb Matching Probes A 
NM_062497 3/11 Cross Hyb Matching Probes A 
NM_062558 2/11 Cross Hyb Matching Probes A 
NM_062569 1/11 Cross Hyb Matching Probes A 
NM_062505 4/11 Cross Hyb Matching Probes A 
NM_062490 3/11 Cross Hyb Matching Probes A 
NM_062500 2/11 Cross Hyb Matching Probes A 
NM_069321 1/11 Cross Hyb Matching Probes A 
NM_069359 1/11 Cross Hyb Matching Probes A 
NM_062457 4/11 Cross Hyb Matching Probes A 
SNAP00000000807 4/11 Cross Hyb Matching Probes None
SNAP00000000808 1/11 Cross Hyb Matching Probes None
GENEFINDER00000000821 4/11 Cross Hyb Matching Probes None
SNAP00000007649 3/11 Cross Hyb Matching Probes None
GENEFINDER00000007652 3/11 Cross Hyb Matching Probes None
SNAP00000019951 2/11 Cross Hyb Matching Probes None
GENEFINDER00000019958 2/11 Cross Hyb Matching Probes None
SNAP00000021327 1/11 Cross Hyb Matching Probes None
GENEFINDER00000021348 1/11 Cross Hyb Matching Probes None
SNAP00000034943 2/11 Cross Hyb Matching Probes None
SNAP00000034948 4/11 Cross Hyb Matching Probes None
GENEFINDER00000034961 2/11 Cross Hyb Matching Probes None
GENEFINDER00000034965 4/11 Cross Hyb Matching Probes None
SNAP00000043868 2/11 Cross Hyb Matching Probes None
SNAP00000043869 3/11 Cross Hyb Matching Probes None
SNAP00000043876 3/11 Cross Hyb Matching Probes None
GENEFINDER00000043883 3/11 Cross Hyb Matching Probes None
GENEFINDER00000043888 2/11 Cross Hyb Matching Probes None
SNAP00000004244 1/11 Cross Hyb Matching Probes None
GENEFINDER00000004265 1/11 Cross Hyb Matching Probes None
SNAP00000023386 1/11 Cross Hyb Matching Probes None
GENEFINDER00000023395 1/11 Cross Hyb Matching Probes None
F26G1.7 4/11 Cross Hyb Matching Probes A 
F26G1.8 1/11 Cross Hyb Matching Probes None
R05F9.8 2/11 Cross Hyb Matching Probes A 
R05F9.3 3/11 Cross Hyb Matching Probes R A 
R05F9.13 3/11 Cross Hyb Matching Probes A 
ZK546.6 2/11 Cross Hyb Matching Probes A 
ZK546.3 4/11 Cross Hyb Matching Probes A 
F59A6.8 3/11 Cross Hyb Matching Probes None
F58A6.8 2/11 Cross Hyb Matching Probes A 
C34F11.6 1/11 Cross Hyb Matching Probes A 
ZK1251.6 1/11 Cross Hyb Matching Probes A 
K07F5.2 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:4825399-4825783(+) 100.0 100.0
chrII:4787144-4940265(+) 95.05 95.05
chrII:4933009-4933393(+) 94.27 94.27
chrII:5199774-5200158(+) 92.19 92.19
chrIV:5297956-5298340(+) 92.97 92.97
chrIV:5316517-5316901(+) 92.97 92.97
chrIV:9894608-9894992(+) 92.97 92.97
chrIV:5260583-5260967(+) 92.45 92.45
chrIV:9770025-9770409(+) 92.45 92.45
chrIV:10093057-10093457(+) 92.45 92.45
chrIV:5062573-5265916(+) 93.23 93.23
chrII:4785883-4786267(-) 95.83 95.83
chrII:4916162-4916546(-) 95.83 95.83
chrII:5012855-5013236(-) 94.53 94.53
chrII:4892294-4892678(-) 94.27 94.27
chrII:5115081-5157062(-) 93.23 93.23
chrIV:9766750-9767134(-) 93.23 93.23
chrIV:5055626-5056010(-) 92.19 92.19
chrIV:5064673-5065057(-) 92.19 92.19
chrIV:5312722-5313106(-) 91.93 91.93
Public Domain and Genome References
Gene Title major sperm protein
Gene Symbol msp-40
Ensembl C33F10.9
Entrez Gene 173830 Entrez gene
SwissProt P53017 EMBL-EBI
WormBase CE02806 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA85761 Major sperm protein protein 50 [Caenorhabditis elegans] emb|CAA94282.1| Hypothetical protein K07F5.1 [Caenorhabditis elegans] gb|AAK85493.1| Major sperm protein protein 53 [Caenorhabditis elegans] gb|AAB42254.1| Major sperm protein protein 51 [Caenorhabditis elegans] gb|AAB42255.1| Major sperm protein protein 113 [Caenorhabditis elegans] gb|AAB42253.1| Major sperm protein protein 59 [Caenorhabditis elegans] gb|AAB42256.1| Major sperm protein protein 65 [Caenorhabditis elegans] gb|AAC71087.1| Major sperm protein protein 64 [Caenorhabditis elegans] gb|AAA68711.1| Major sperm protein protein 142 [Caenorhabditis elegans] gb|AAA96204.1| Major sperm protein protein 45 [Caenorhabditis elegans] gb|AAC26926.1| Major sperm protein protein 19 [Caenorhabditis elegans] ref|NP_500773.1| Major Sperm Protein family member (msp-113) [Caenorhabditis elegans] ref|NP_500771.1| Major Sperm Protein family member (msp-51) [Caenorhabditis elegans] ref|NP_501759.1| Major Sperm Protein family member (msp-81) [Caenorhabditis elegans] ref|NP_500780.1| Major Sperm Protein family member (msp-65) [Caenorhabditis elegans] ref|NP_500778.1| Major Sperm Protein family member (msp-59) [Caenorhabditis elegans] ref|NP_500760.1| Major Sperm Protein family member (msp-19) [Caenorhabditis elegans] ref|NP_500714.1| Major Sperm Protein family member (msp-53) [Caenorhabditis elegans] ref|NP_495149.1| Major Sperm Protein family member (msp-64) [Caenorhabditis elegans] ref|NP_495144.1| Major Sperm Protein family member (msp-142) [Caenorhabditis elegans] ref|NP_494972.1| Major Sperm Protein family member (msp-50) [Caenorhabditis elegans] ref|NP_494959.1| Major Sperm Protein family member (msp-45) [Caenorhabditis elegans] ref|NP_494898.1| Major Sperm Protein family member (msp-31) [Caenorhabditis elegans] ref|NP_494865.1| Major Sperm Protein family member (msp-40) [Caenorhabditis elegans] gb|AAK31477.1| Major sperm protein protein 40 [Caenorhabditis elegans] gb|AAA83175.1| Major sperm protein protein 31 [Caenorhabditis elegans] sp|P53017|MSP19_CAEEL Major sperm protein 19/31/40/45/50/51/53/59/61/65/81/113/142 (MSP) 1.0E-71
blast CAB03362 Hypothetical protein T13F2.11 [Caenorhabditis elegans] ref|NP_501742.1| Major Sperm Protein family member (msp-78) [Caenorhabditis elegans] sp|Q94053|MSP78_CAEEL Major sperm protein 78 (MSP) 2.0E-71
blast AAK68539 Hypothetical protein Y59H11AM.1 [Caenorhabditis elegans] ref|NP_501464.1| Y59H11AM.1 [Caenorhabditis elegans] 3.0E-71
Protein Domains
Database ID Description E-Value
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 4.7E-35
Sequence
Target Sequence 
>C. ELEGANS:172834_X_AT
gtcccaccaggagatatccagacccagccgggtacgaagatcgtcttcaatgcaccatac
gacgacaagcacacctaccacattaaggtgatcaattcatctgctcgccgtattggatat
ggaatcaagaccaccaatatgaagagacttggagttgatccaccatgtggagttttggac
ccaaaggaagctgttcttcttgctgtttcctgcgatgccttcgctttcggacaggaggac
actaacaacgaccgtattactgttgagtggaccaacaccccggatggagctgctaagcaa
ttccgccgtgagtggttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCCCACCAGGAGATATCCAGACCC 650 475 25 Antisense
GACCCAGCCGGGTACGAAGATCGTC 584 381 45 Antisense
GAAGATCGTCTTCAATGCACCATAC 127 339 60 Antisense
CACCATACGACGACAAGCACACCTA 648 201 77 Antisense
AAGGTGATCAATTCATCTGCTCGCC 667 159 109 Antisense
TCATCTGCTCGCCGTATTGGATATG 182 621 121 Antisense
AGGAAGCTGTTCTTCTTGCTGTTTC 442 55 209 Antisense
ATGCCTTCGCTTTCGGACAGGAGGA 477 41 239 Antisense
GGAGGACACTAACAACGACCGTATT 214 513 258 Antisense
CACCCCGGATGGAGCTGCTAAGCAA 324 199 300 Antisense
TAAGCAATTCCGCCGTGAGTGGTTC 658 637 318 Antisense
Sequence Source Affymetrix Proprietary Database