CN187993

Overview
NameCN187993
Unique NameCN187993
TypeEST
OrganismCitrus sinensis (Sweet orange)
Sequence length593
Libraries
Library NameType
Washington Navel Orange Stored Fruit Pulp cDNA Librarycdna_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
CN187993_ssr567 microsatellite CN187993_ssr567:567..576. BLAST: Citrus ESTs to Prunus persica proteins V1
Csv1_Contig8715 contig Csv1_Contig8715:1..570. BLAST: Citrus Unigene V1 Contigs to Prunus persica proteins V1
Homology
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_DROME (Probable small nuclear ribonucleoprotein Sm D2 OS=Drosophila melanogaster GN=snRNP2 PE=1 SV=1)

HSP 1 Score: 171.4 bits (433), Expect = 3.001e-42
Identity = 81/90 (90.00%), Postives = 86/90 (95.56%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            FNTGPLSVL  SVKNNTQVLINCRNNKKLLGRV+AFDRHCNMVLENV+EMWTELP+TGKGKKK  PVNKDRFISKMFLRGDSVI+V+RNP
Sbjct:   23 FNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTELPRTGKGKKKVKPVNKDRFISKMFLRGDSVILVLRNP 112          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_MOUSE (Small nuclear ribonucleoprotein Sm D2 OS=Mus musculus GN=Snrpd2 PE=2 SV=1)

HSP 1 Score: 169.474 bits (428), Expect = 1.141e-41
Identity = 79/90 (87.78%), Postives = 87/90 (96.67%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            FNTGPLSVL  SVKNNTQVLINCRNNKKLLGRV+AFDRHCNMVLENV+EMWTE+PK+GKGKKK+ PVNKDR+ISKMFLRGDSVI+V+RNP
Sbjct:   24 FNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNP 113          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_HUMAN (Small nuclear ribonucleoprotein Sm D2 OS=Homo sapiens GN=SNRPD2 PE=1 SV=1)

HSP 1 Score: 169.474 bits (428), Expect = 1.141e-41
Identity = 79/90 (87.78%), Postives = 87/90 (96.67%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            FNTGPLSVL  SVKNNTQVLINCRNNKKLLGRV+AFDRHCNMVLENV+EMWTE+PK+GKGKKK+ PVNKDR+ISKMFLRGDSVI+V+RNP
Sbjct:   24 FNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNP 113          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_BOVIN (Small nuclear ribonucleoprotein Sm D2 OS=Bos taurus GN=SNRPD2 PE=3 SV=1)

HSP 1 Score: 169.474 bits (428), Expect = 1.141e-41
Identity = 79/90 (87.78%), Postives = 87/90 (96.67%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            FNTGPLSVL  SVKNNTQVLINCRNNKKLLGRV+AFDRHCNMVLENV+EMWTE+PK+GKGKKK+ PVNKDR+ISKMFLRGDSVI+V+RNP
Sbjct:   24 FNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNP 113          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_CAEEL (Probable small nuclear ribonucleoprotein Sm D2 OS=Caenorhabditis elegans GN=snr-4 PE=1 SV=1)

HSP 1 Score: 160.999 bits (406), Expect = 4.056e-39
Identity = 77/90 (85.56%), Postives = 83/90 (92.22%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            FN GPLS+L  SVKNN QVLINCRNNKKLLGRV+AFDRHCNMVLENV+EMWTE+PKTGKGKKKA  V KDRFISKMFLRGDSVI+VV+NP
Sbjct:   24 FNVGPLSILTNSVKNNHQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKTGKGKKKAKSVAKDRFISKMFLRGDSVILVVKNP 113          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_DICDI (Probable small nuclear ribonucleoprotein Sm D2 OS=Dictyostelium discoideum GN=snrpd2 PE=3 SV=1)

HSP 1 Score: 157.532 bits (397), Expect = 4.485e-38
Identity = 74/89 (83.15%), Postives = 83/89 (93.26%), Query Frame = -1
Query:  147 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 413
            + GPLS+LM SV NNTQVLIN RNNKKLLGRVRAFDRHCNMVLENV+E+WTE+PKT KGKKKA P+NKDRFISKMFLRGDSVI+V++NP
Sbjct:   16 SNGPLSILMDSVNNNTQVLINVRNNKKLLGRVRAFDRHCNMVLENVKEIWTEVPKTAKGKKKAKPINKDRFISKMFLRGDSVILVLKNP 104          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_SCHPO (Probable small nuclear ribonucleoprotein Sm D2 OS=Schizosaccharomyces pombe GN=smd2 PE=2 SV=1)

HSP 1 Score: 132.494 bits (332), Expect = 1.545e-30
Identity = 65/90 (72.22%), Postives = 74/90 (82.22%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            F+ GPLSVL  +VKN+ QVLINCRNNKKLL RV+AFDRH NMVLENV+EMWTE  +T  G KK   +NKDRFISKMFLRGD V++VVR P
Sbjct:   25 FSAGPLSVLQQAVKNHDQVLINCRNNKKLLARVKAFDRHSNMVLENVKEMWTEKKRTASG-KKGKAINKDRFISKMFLRGDGVVLVVRIP 113          
BLAST of CN187993 vs. ExPASy Swiss-Prot
Match: SMD2_YEAST (Small nuclear ribonucleoprotein Sm D2 OS=Saccharomyces cerevisiae GN=SMD2 PE=1 SV=2)

HSP 1 Score: 101.679 bits (252), Expect = 2.921e-21
Identity = 48/90 (53.33%), Postives = 67/90 (74.44%), Query Frame = -1
Query:  147 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVVRNP 416
            F  GP+S++  ++   T V+I+ RNN K++ RV+AFDRHCNMVLENV+E+WTE       KK    +N++RFISK+FLRGDSVI+V++ P
Sbjct:   26 FKHGPMSLINDAMVTRTPVIISLRNNHKIIARVKAFDRHCNMVLENVKELWTE-------KKGKNVINRERFISKLFLRGDSVIVVLKTP 108          
The following BLAST results are available for this feature:
BLAST of CN187993 vs. ExPASy Swiss-Prot
Analysis Date: 2010-05-10 (BLAST: Citrus ESTs to SwissProt)
Total hits: 8
Match NameE-valueIdentityDescription
SMD2_DROME3.001e-4290.00Probable small nuclear ribonucleoprotein Sm D2 OS=... [more]
SMD2_MOUSE1.141e-4187.78Small nuclear ribonucleoprotein Sm D2 OS=Mus muscu... [more]
SMD2_HUMAN1.141e-4187.78Small nuclear ribonucleoprotein Sm D2 OS=Homo sapi... [more]
SMD2_BOVIN1.141e-4187.78Small nuclear ribonucleoprotein Sm D2 OS=Bos tauru... [more]
SMD2_CAEEL4.056e-3985.56Probable small nuclear ribonucleoprotein Sm D2 OS=... [more]
SMD2_DICDI4.485e-3883.15Probable small nuclear ribonucleoprotein Sm D2 OS=... [more]
SMD2_SCHPO1.545e-3072.22Probable small nuclear ribonucleoprotein Sm D2 OS=... [more]
SMD2_YEAST2.921e-2153.33Small nuclear ribonucleoprotein Sm D2 OS=Saccharom... [more]
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Properties
Property NameValue
Genbank descriptionUCRCS05_0005F12_f Washington Navel Orange Stored Fruit Pulp cDNA Library Citrus sinensis cDNA clone CS_WEb0005F12, mRNA sequence.
Sequences
The following sequences are available for this feature:

EST sequence

>CN187993 ID=CN187993; Name=CN187993; organism=Citrus sinensis; type=EST; length=593bp
AGTCACTGACTTTATAATAAACTTTCAGACCAAACATGTTAATCCCTAAA
AATGTAAATGGATCTGTCACGCAACATAGTCCACAAATATCAAGACAACC
GTTCTAACATCATCGAGAATGATTTCTAAAGACCGCTATATCACTTGGGA
TTTCTAACGACAATGATTACAGAGTCCCCTCGAAGGAACATCTTGCTGAT
GAATCTGTCTTTGTTGACCGGAAGAGCTTTCTTCTTTCCTTTCCCAGTCT
TGGGCAACTCAGTCCACATCTCCCTGACATTTTCAAGGACCATGTTGCAG
TGTCGATCAAATGCCCTCACACGGCCAAGAAGCTTCTTGTTGTTCCGGCA
GTTGATTAGCACCTGAGTGTTATTTTTAACACTCATCATCAGAACAGAAA
GTGGCCCAGTGTTGAATTCCTCTTCCTCAGTCTTTCCACCAGTGGTATCC
TCATCCATTGCTCTACTCATCTTCACTCGAGTCTCCCAAACGACGACAGG
GTATAGACTTTAGAGAGAGCGAGAGGGTGAAGGGGATCTTGGGCAGAGAA
GTGAGAGTTGAAGAGTGAGAGAGAGAGCGAAAAACGAATGCCT
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