CX070068

Overview
NameCX070068
Unique NameCX070068
TypeEST
OrganismCitrus sinensis (Sweet orange)
Sequence length773
Libraries
Library NameType
Parent Washington Navel Orange Callus cDNA Library UCRCS08-2cdna_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
CX070068_ssr141 microsatellite CX070068_ssr141:141..152. BLAST: Citrus ESTs to Prunus persica proteins V1
Csv1_Contig3377 contig Csv1_Contig3377:3..775. BLAST: Citrus Unigene V1 Contigs to Prunus persica proteins V1
Homology
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_TOBAC (Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1)

HSP 1 Score: 194.897 bits (494), Expect = 4.116e-49
Identity = 89/92 (96.74%), Postives = 91/92 (98.91%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKSRSDRKPP 466
            MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECY+RGNTIKYLRVPDEVIDKVQEE KSR+DRKPP
Sbjct:    1 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYVRGNTIKYLRVPDEVIDKVQEEAKSRTDRKPP 92          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_FAGSY (Probable U6 snRNA-associated Sm-like protein LSm4 OS=Fagus sylvatica GN=LSM4 PE=2 SV=1)

HSP 1 Score: 194.126 bits (492), Expect = 7.021e-49
Identity = 89/92 (96.74%), Postives = 92/92 (100.00%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKSRSDRKPP 466
            MLPLSLLKTAQGHPMLVELK+GETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMP+CYIRGNTIKYLRVPDEVIDKVQEETKSR+DRKPP
Sbjct:    1 MLPLSLLKTAQGHPMLVELKSGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPDCYIRGNTIKYLRVPDEVIDKVQEETKSRADRKPP 92          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_ORYSJ (Probable U6 snRNA-associated Sm-like protein LSm4 OS=Oryza sativa subsp. japonica GN=Os01g0256900 PE=2 SV=1)

HSP 1 Score: 191.43 bits (485), Expect = 4.551e-48
Identity = 90/93 (96.77%), Postives = 92/93 (98.92%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEET-KSRSDRKPP 466
            MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGD+FWRMPECYIRGNTIKYLRVPDEVIDKVQEET KSRSDR+PP
Sbjct:    1 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDKFWRMPECYIRGNTIKYLRVPDEVIDKVQEETSKSRSDRRPP 93          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_MOUSE (U6 snRNA-associated Sm-like protein LSm4 OS=Mus musculus GN=Lsm4 PE=2 SV=1)

HSP 1 Score: 161.384 bits (407), Expect = 5.043e-39
Identity = 73/92 (79.35%), Postives = 81/92 (88.04%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKSRSDRKPP 466
            MLPLSLLKTAQ HPMLVELKNGETYNGHLV+CD WMNI+LREVICTS+DGD+FWRMPECYIRG+TIKYLR+PDE+ID V+EE      R  P
Sbjct:    1 MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTIKYLRIPDEIIDMVREEAAKGRGRGGP 92          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_HUMAN (U6 snRNA-associated Sm-like protein LSm4 OS=Homo sapiens GN=LSM4 PE=1 SV=1)

HSP 1 Score: 160.614 bits (405), Expect = 8.602e-39
Identity = 71/86 (82.56%), Postives = 81/86 (94.19%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKSR 448
            MLPLSLLKTAQ HPMLVELKNGETYNGHLV+CD WMNI+LREVICTS+DGD+FWRMPECYIRG+TIKYLR+PDE+ID V+EE  ++
Sbjct:    1 MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTIKYLRIPDEIIDMVKEEVVAK 86          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_BOVIN (U6 snRNA-associated Sm-like protein LSm4 OS=Bos taurus GN=LSM4 PE=2 SV=1)

HSP 1 Score: 160.614 bits (405), Expect = 8.602e-39
Identity = 71/86 (82.56%), Postives = 81/86 (94.19%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKSR 448
            MLPLSLLKTAQ HPMLVELKNGETYNGHLV+CD WMNI+LREVICTS+DGD+FWRMPECYIRG+TIKYLR+PDE+ID V+EE  ++
Sbjct:    1 MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTIKYLRIPDEIIDMVKEEVVAK 86          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_DICDI (Probable U6 snRNA-associated Sm-like protein LSm4 OS=Dictyostelium discoideum GN=lsm4 PE=3 SV=1)

HSP 1 Score: 134.035 bits (336), Expect = 8.622e-31
Identity = 60/85 (70.59%), Postives = 72/85 (84.71%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKS 445
            MLPLSLL+T QGH ++VELKNGETYNG LVNCD WMNI+L+ VI TSKD D+FW++  CYIRGNTIKY+ VPDE+ID V EE ++
Sbjct:    1 MLPLSLLRTGQGHQIMVELKNGETYNGLLVNCDNWMNINLKNVIRTSKDSDKFWKIQSCYIRGNTIKYISVPDEIIDLVAEEEQT 85          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_CAEEL (Probable U6 snRNA-associated Sm-like protein LSm4 OS=Caenorhabditis elegans GN=lsm-4 PE=3 SV=1)

HSP 1 Score: 132.494 bits (332), Expect = 2.509e-30
Identity = 60/82 (73.17%), Postives = 72/82 (87.80%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEE 436
            +LPLSLLKTAQ HPMLVELKNGETYNGHL  CD+WMNIHL +VI TSKDGD+F++M E Y+RG+TIKYLR+P+ V+D V+ E
Sbjct:    2 VLPLSLLKTAQNHPMLVELKNGETYNGHLKACDSWMNIHLVDVIFTSKDGDKFFKMSEAYVRGSTIKYLRIPETVVDLVKTE 83          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_SCHPO (Probable U6 snRNA-associated Sm-like protein LSm4 OS=Schizosaccharomyces pombe GN=lsm4 PE=2 SV=1)

HSP 1 Score: 124.02 bits (310), Expect = 8.923e-28
Identity = 57/90 (63.33%), Postives = 73/90 (81.11%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVIDKV-QEETKSRSDR 457
            MLPL+LL   QG P+LVELKNGET+NGHL NCD +MN+ LREVI T  DGD+F+R+PECYIRGN IKYLR+ DEV+ +V +++ + R +R
Sbjct:    1 MLPLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPDGDKFFRLPECYIRGNNIKYLRIQDEVLSQVAKQQAQQRENR 90          
BLAST of CX070068 vs. ExPASy Swiss-Prot
Match: LSM4_YEAST (U6 snRNA-associated Sm-like protein LSm4 OS=Saccharomyces cerevisiae GN=LSM4 PE=1 SV=1)

HSP 1 Score: 71.2478 bits (173), Expect = 6.864e-12
Identity = 38/98 (38.78%), Postives = 56/98 (57.14%), Query Frame = 2
Query:  191 MLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSK----------DGDRFWRMPECYIRGNTIKYLRVPDEVIDKVQEETKSRSD 454
            MLPL LL  A+G  M +ELKNGE   G L N D WMN+ L  V   S+          +  +  ++ E YIRG  IK++++ D +IDKV+++  S ++
Sbjct:    1 MLPLYLLTNAKGQQMQIELKNGEIIQGILTNVDNWMNLTLSNVTEYSEESAINSEDNAESSKAVKLNEIYIRGTFIKFIKLQDNIIDKVKQQINSNNN 98          
The following BLAST results are available for this feature:
BLAST of CX070068 vs. ExPASy Swiss-Prot
Analysis Date: 2010-05-10 (BLAST: Citrus ESTs to SwissProt)
Total hits: 10
Match NameE-valueIdentityDescription
LSM4_TOBAC4.116e-4996.74Probable U6 snRNA-associated Sm-like protein LSm4 ... [more]
LSM4_FAGSY7.021e-4996.74Probable U6 snRNA-associated Sm-like protein LSm4 ... [more]
LSM4_ORYSJ4.551e-4896.77Probable U6 snRNA-associated Sm-like protein LSm4 ... [more]
LSM4_MOUSE5.043e-3979.35U6 snRNA-associated Sm-like protein LSm4 OS=Mus mu... [more]
LSM4_HUMAN8.602e-3982.56U6 snRNA-associated Sm-like protein LSm4 OS=Homo s... [more]
LSM4_BOVIN8.602e-3982.56U6 snRNA-associated Sm-like protein LSm4 OS=Bos ta... [more]
LSM4_DICDI8.622e-3170.59Probable U6 snRNA-associated Sm-like protein LSm4 ... [more]
LSM4_CAEEL2.509e-3073.17Probable U6 snRNA-associated Sm-like protein LSm4 ... [more]
LSM4_SCHPO8.923e-2863.33Probable U6 snRNA-associated Sm-like protein LSm4 ... [more]
LSM4_YEAST6.864e-1238.78U6 snRNA-associated Sm-like protein LSm4 OS=Saccha... [more]
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Properties
Property NameValue
Genbank descriptionUCRCS08_14E11_g Parent Washington Navel Orange Callus cDNA Library UCRCS08-2 Citrus sinensis cDNA clone UCRCS08-14E11-I22-1-4.g, mRNA sequence.
Sequences
The following sequences are available for this feature:

EST sequence

>CX070068 ID=CX070068; Name=CX070068; organism=Citrus sinensis; type=EST; length=773bp
CTAAGACGCAACGGGGCAACACCGAAACGCCGACCAGCCACCCGCCGCTC
TTTGCCTCAACAGTTGATCGCTAGCCACGCCCAAGCCAAACCAATCTAAA
CCCTCCTTGTGACACGTCTAATCTCACTGTGCTCGCATCGTTTCTTTCTT
TCTCTTTTCTGGGTTTAGTTTTCTCGTGCCCTGAAAAAACATGCTTCCCC
TTTCTCTACTTAAAACTGCACAAGGCCATCCAATGTTAGTAGAACTGAAA
AATGGGGAGACTTACAATGGACATTTGGTCAATTGTGATACTTGGATGAA
CATCCATCTTCGTGAAGTCATCTGTACATCTAAGGATGGAGATAGATTTT
GGAGAATGCCTGAATGCTATATTCGGGGGAACACAATCAAGTATCTTCGA
GTTCCTGATGAGGTGATTGATAAAGTTCAGGAAGAAACCAAGAGTCGATC
AGATCGTAAGCCACCTGGGGTTGGGCGTGGTAGAGGAAGAGGCCGGGAAG
ATGGTGCGAGTGGAAGGCAAACAAAAGGCATTGGGCGTGGTCTGGATGAT
GGTGGTGCTAAGGGAGCAGGTGGAGGCCGAGGCAGGGGTGGGCCTGGTGG
AAAGCCTGGTGGGAGCAGAGGGGGAGGGCGAAGTCGAGGGTAGTCTGCTA
TTGAACACCATAGGGCAAGCTTGCTATTTTTTTTTAAGGTATTTTTGCCC
CATCTTCTAATATTGTTGATTTTTATTACCAAATGTATTAAGGGTTGTAG
CATAGAACTAGATTAAGCTTGTA
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