CX308884

Overview
NameCX308884
Unique NameCX308884
TypeEST
OrganismCitrus clementina (Clementine)
Sequence length360
Libraries
Library NameType
AbsLeaSub1cdna_library
Analyses
This EST is derived from or has results from the following analyses
Analysis NameDate Performed
BLAST: Citrus ESTs to Prunus persica proteins V12010-05-10
BLAST: Citrus ESTs to Populus V2 proteins2010-05-10
BLAST: Citrus ESTs to TAIR92010-05-10
BLAST: Citrus ESTs to SwissProt2010-05-10
Alignments
Feature NameTypeLocationAnalysis
CX308884_ssr2 microsatellite CX308884_ssr2:2..13. BLAST: Citrus ESTs to Prunus persica proteins V1
Homology
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: RUXF_YEAST (Small nuclear ribonucleoprotein F OS=Saccharomyces cerevisiae GN=SMX3 PE=1 SV=1)

HSP 1 Score: 87.8113 bits (216), Expect = 1.848e-17
Identity = 45/74 (60.81%), Postives = 51/74 (68.92%), Query Frame = 3
Query:   36 PVNPKPFLNNLTGKTVIVKLKWGM-EYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYLRGVP 254
            PVNPKPFL  L    V VKLK+   EY+G L S D+Y NLQL  AEE+V G   G LGEI IRCNNVLY+R +P
Sbjct:   12 PVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNVLYIRELP 85          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_MOUSE (U6 snRNA-associated Sm-like protein LSm6 OS=Mus musculus GN=Lsm6 PE=2 SV=1)

HSP 1 Score: 71.2478 bits (173), Expect = 1.790e-12
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3
Query:   45 PKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            P  FL  + G+ V+VKL  G++Y+G LA +D YMN+ L   EEYV+GQ     G+  IR NNVLY+
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_HUMAN (U6 snRNA-associated Sm-like protein LSm6 OS=Homo sapiens GN=LSM6 PE=1 SV=1)

HSP 1 Score: 71.2478 bits (173), Expect = 1.790e-12
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3
Query:   45 PKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            P  FL  + G+ V+VKL  G++Y+G LA +D YMN+ L   EEYV+GQ     G+  IR NNVLY+
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_LACBS (U6 snRNA-associated Sm-like protein LSm6 OS=Laccaria bicolor (strain S238N-H82) GN=LSM6 PE=3 SV=1)

HSP 1 Score: 70.8626 bits (172), Expect = 2.338e-12
Identity = 34/77 (44.16%), Postives = 48/77 (62.34%), Query Frame = 3
Query:   12 PRPSMATIPVNPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            P P  AT   +P  FL  + GK VIV+L  G++Y+G L+ +D YMN+ L   EE+V+G  +   G+  IR NNVLY+
Sbjct:   17 PPPPQATHTGSPTDFLKGVVGKRVIVRLTSGVDYRGLLSCLDGYMNIALEQTEEHVNGVVTNRYGDAFIRGNNVLYI 93          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_AJECN (U6 snRNA-associated Sm-like protein LSm6 OS=Ajellomyces capsulata (strain NAm1 / WU24) GN=LSM6 PE=3 SV=1)

HSP 1 Score: 70.8626 bits (172), Expect = 2.338e-12
Identity = 34/67 (50.75%), Postives = 44/67 (65.67%), Query Frame = 3
Query:   42 NPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            +P  FL+ +TG  V VKL  G+ YKG L SVD YMN+ L   EEYVDG+   + G+  +R NNVLY+
Sbjct:   11 DPSAFLSEITGAPVTVKLNSGVVYKGELQSVDGYMNIALEKTEEYVDGKLRRSYGDAFVRGNNVLYI 77          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_SCHPO (U6 snRNA-associated Sm-like protein LSm6 OS=Schizosaccharomyces pombe GN=lsm6 PE=2 SV=1)

HSP 1 Score: 70.0922 bits (170), Expect = 3.988e-12
Identity = 32/67 (47.76%), Postives = 46/67 (68.66%), Query Frame = 3
Query:   42 NPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            +P  FLN + GK V+++L  G++YKG L+ +D YMNL L   EEYV+G+ +   G+  IR NNVLY+
Sbjct:    4 SPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNGKKTNVYGDAFIRGNNVLYV 70          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_COCIM (U6 snRNA-associated Sm-like protein LSm6 OS=Coccidioides immitis GN=LSM6 PE=3 SV=1)

HSP 1 Score: 68.1662 bits (165), Expect = 1.516e-11
Identity = 30/67 (44.78%), Postives = 46/67 (68.66%), Query Frame = 3
Query:   42 NPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            +P  FL+ +TG +V VKL  G+ YKG L S+D YMN+ L   +E+V+G+   + G++ +R NNVLY+
Sbjct:   11 DPSAFLSGITGASVTVKLNSGVVYKGELQSIDGYMNIALEKTQEFVNGKLRKSYGDVFVRGNNVLYI 77          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_ASPFU (U6 snRNA-associated Sm-like protein LSm6 OS=Aspergillus fumigatus GN=lsm6 PE=3 SV=2)

HSP 1 Score: 67.781 bits (164), Expect = 1.979e-11
Identity = 33/67 (49.25%), Postives = 43/67 (64.18%), Query Frame = 3
Query:   42 NPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            +P  FL  + G  V VKL  G+ YKG L SVD YMN+ L  +EE+VDG+   + G+  IR NNVLY+
Sbjct:   11 DPSAFLGEIIGAPVTVKLNSGVVYKGELQSVDGYMNIALERSEEFVDGKLKRSYGDAFIRGNNVLYI 77          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_NEOFI (U6 snRNA-associated Sm-like protein LSm6 OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) GN=lsm6 PE=3 SV=2)

HSP 1 Score: 66.2402 bits (160), Expect = 5.759e-11
Identity = 32/67 (47.76%), Postives = 43/67 (64.18%), Query Frame = 3
Query:   42 NPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYL 242
            +P  FL  + G  V VKL  G+ Y+G L SVD YMN+ L  +EE+VDG+   + G+  IR NNVLY+
Sbjct:   11 DPSAFLGEIIGAPVTVKLNSGVVYRGELQSVDGYMNIALERSEEFVDGKLRRSYGDAFIRGNNVLYI 77          
BLAST of CX308884 vs. ExPASy Swiss-Prot
Match: LSM6_MAGGR (U6 snRNA-associated Sm-like protein LSm6 OS=Magnaporthe grisea GN=LSM6 PE=3 SV=1)

HSP 1 Score: 65.855 bits (159), Expect = 7.522e-11
Identity = 33/71 (46.48%), Postives = 43/71 (60.56%), Query Frame = 3
Query:   42 NPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNAEEYVDGQFSGNLGEILIRCNNVLYLRGVP 254
            +P  FL  + G  V VKL  G+ YKG L SVD YMN+ L  AEE+V GQ   + G+  +R NNV+Y+   P
Sbjct:   13 DPTSFLGEIIGNMVTVKLNSGVIYKGELQSVDGYMNIALEKAEEWVAGQKKRSYGDAFVRGNNVMYIAASP 83          
The following BLAST results are available for this feature:
BLAST of CX308884 vs. ExPASy Swiss-Prot
Analysis Date: 2010-05-10 (BLAST: Citrus ESTs to SwissProt)
Total hits: 20
Match NameE-valueIdentityDescription
RUXF_YEAST1.848e-1760.81Small nuclear ribonucleoprotein F OS=Saccharomyces... [more]
LSM6_MOUSE1.790e-1248.48U6 snRNA-associated Sm-like protein LSm6 OS=Mus mu... [more]
LSM6_HUMAN1.790e-1248.48U6 snRNA-associated Sm-like protein LSm6 OS=Homo s... [more]
LSM6_LACBS2.338e-1244.16U6 snRNA-associated Sm-like protein LSm6 OS=Laccar... [more]
LSM6_AJECN2.338e-1250.75U6 snRNA-associated Sm-like protein LSm6 OS=Ajello... [more]
LSM6_SCHPO3.988e-1247.76U6 snRNA-associated Sm-like protein LSm6 OS=Schizo... [more]
LSM6_COCIM1.516e-1144.78U6 snRNA-associated Sm-like protein LSm6 OS=Coccid... [more]
LSM6_ASPFU1.979e-1149.25U6 snRNA-associated Sm-like protein LSm6 OS=Asperg... [more]
LSM6_NEOFI5.759e-1147.76U6 snRNA-associated Sm-like protein LSm6 OS=Neosar... [more]
LSM6_MAGGR7.522e-1146.48U6 snRNA-associated Sm-like protein LSm6 OS=Magnap... [more]

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Properties
Property NameValue
Genbank descriptionC21005A04Rv AbsLeaSub1 Citrus clementina cDNA clone C21005A04, mRNA sequence.
Sequences
The following sequences are available for this feature:

EST sequence

>CX308884 ID=CX308884; Name=CX308884; organism=Citrus clementina; type=EST; length=360bp
TTTCCTTCCTTCCTCGTCCTTCGATGGCTACGATACCGGTTAACCCGAAA
CCTTTCTTGAATAACTTGACTGGAAAGACTGTCATTGTTAAACTCAAGTG
GGGAATGGAGTATAAAGGTTTCCTTGCCTCAGTGGATTCTTACATGAACT
TGCAGCTAGGAAATGCTGAAGAATATGTTGATGGACAGTTCTCTGGAAAC
CTTGGAGAGATCTTGATCAGATGCAACAATGTTCTCTATCTCCGCGGGGT
TCCAGAGGATGAAGAAATAGAGGATGCTGATCGAGACTAAGGGATTTGTT
CAAGCATTTTAGTCATCGGCTAAATAGAACTCTGTTATTTTAAGCTTAAA
CCTGCTCCAT
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