CX294097

Overview
NameCX294097
Unique NameCX294097
TypeEST
OrganismCitrus clementina (Clementine)
Sequence length558
Libraries
Library NameType
AbsAOv1cdna_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
CX294097_ssr43 microsatellite CX294097_ssr43:43..54. BLAST: Citrus ESTs to Prunus persica proteins V1
Ccv1_Contig9567 contig Ccv1_Contig9567:4..561. BLAST: Citrus Unigene V1 Contigs to Prunus persica proteins V1
Homology
BLAST of CX294097 vs. ExPASy Swiss-Prot
Match: RPB4_MOUSE (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus GN=Polr2d PE=2 SV=2)

HSP 1 Score: 107.842 bits (268), Expect = 3.569e-23
Identity = 54/137 (39.42%), Postives = 92/137 (67.15%), Query Frame = 2
Query:   38 SGEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIRKFE 448
            +G+ EE+A++L    EF  A+ L+N EV ++L+H+ +Q +   D+   ++S+VF K+L Y  RFSR+KN + +  VR +L + +L +FEL  L NLCPET EE+ A++PS++ R    +DE ++++L+D+   R F+
Sbjct:   10 AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNYTARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FEDEELQQILDDIQTKRSFQ 141          
BLAST of CX294097 vs. ExPASy Swiss-Prot
Match: RPB4_HUMAN (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens GN=POLR2D PE=1 SV=1)

HSP 1 Score: 107.842 bits (268), Expect = 3.569e-23
Identity = 54/137 (39.42%), Postives = 92/137 (67.15%), Query Frame = 2
Query:   38 SGEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIRKFE 448
            +G+ EE+A++L    EF  A+ L+N EV ++L+H+ +Q +   D+   ++S+VF K+L Y  RFSR+KN + +  VR +L + +L +FEL  L NLCPET EE+ A++PS++ R    +DE ++++L+D+   R F+
Sbjct:   10 AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNYTARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FEDEELQQILDDIQTKRSFQ 141          
BLAST of CX294097 vs. ExPASy Swiss-Prot
Match: RPB4_DICDI (DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum GN=polr2d PE=3 SV=1)

HSP 1 Score: 97.8265 bits (242), Expect = 3.693e-20
Identity = 53/147 (36.05%), Postives = 86/147 (58.50%), Query Frame = 2
Query:   44 EEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDD-------------PMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIRKF 445
            +EEE+   LK   +   AK L+N EVAI+L+H+    +    +              +N + + F K+L Y ++FSRYKN  +++QVR  LS+  L EFE+  L NLCPE  +EA +++PS+K      +D+ ++ +L++LS +RKF
Sbjct:   12 QEEEDLTTLKFPRDLKDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSINDIIRTFHKTLAYAEKFSRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIPSLKKM----EDDELQAILDELSNLRKF 154          
BLAST of CX294097 vs. ExPASy Swiss-Prot
Match: RPB4_DROME (DNA-directed RNA polymerase II 16 kDa polypeptide OS=Drosophila melanogaster GN=Rpb4 PE=1 SV=5)

HSP 1 Score: 92.4337 bits (228), Expect = 1.552e-18
Identity = 49/133 (36.84%), Postives = 81/133 (60.90%), Query Frame = 2
Query:   50 EENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIRKFE 448
            +E+AA+L+   EF  A+ L+  EV ++LDH+  + Q  S D   + S+VF K+  Y   F ++KN + +   R +L + +L +FEL  LGNLCPE  EEA A++PS++ R    +DE + ++L+D+   R  +
Sbjct:   11 DEDAADLQFPKEFENAETLLISEVHMLLDHR--KRQNESADEEQEFSEVFMKTYAYTDSFRKFKNKETIMSARSLLMQKKLHKFELAALGNLCPEAPEEAKALIPSLEGR---FEDEELRQILDDIGTKRSLQ 138          
BLAST of CX294097 vs. ExPASy Swiss-Prot
Match: RPB4_SCHPO (DNA-directed RNA polymerase II subunit rpb4 OS=Schizosaccharomyces pombe GN=rpb4 PE=1 SV=1)

HSP 1 Score: 68.1662 bits (165), Expect = 3.134e-11
Identity = 42/133 (31.58%), Postives = 74/133 (55.64%), Query Frame = 2
Query:   50 EENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIRKFE 448
            EE+AA+LK+G EF     L   E  I+++    Q  + ++  +  ++ V +K++ Y   F+R+K  +A      IL   +  +FE   LG LC E  EEA  ++PS+  +    DD+ ++ +L++LS +RKF+
Sbjct:    7 EEDAAQLKLGPEFENEDMLTVSEAKILIETVLAQRARETNGEI-PMTDVMKKTVAYFNVFARFKTAEATYACERILGN-RFHKFERAQLGTLCCEDAEEARTLIPSLANK---IDDQNLQGILDELSTLRKFQ 134          
The following BLAST results are available for this feature:
BLAST of CX294097 vs. ExPASy Swiss-Prot
Analysis Date: 2010-05-10 (BLAST: Citrus ESTs to SwissProt)
Total hits: 5
Match NameE-valueIdentityDescription
RPB4_MOUSE3.569e-2339.42DNA-directed RNA polymerase II subunit RPB4 OS=Mus... [more]
RPB4_HUMAN3.569e-2339.42DNA-directed RNA polymerase II subunit RPB4 OS=Hom... [more]
RPB4_DICDI3.693e-2036.05DNA-directed RNA polymerase II subunit rpb4 OS=Dic... [more]
RPB4_DROME1.552e-1836.84DNA-directed RNA polymerase II 16 kDa polypeptide ... [more]
RPB4_SCHPO3.134e-1131.58DNA-directed RNA polymerase II subunit rpb4 OS=Sch... [more]
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Properties
Property NameValue
Genbank descriptionC05011A10SK AbsAOv1 Citrus clementina cDNA clone C05011A10, mRNA sequence.
Sequences
The following sequences are available for this feature:

EST sequence

>CX294097 ID=CX294097; Name=CX294097; organism=Citrus clementina; type=EST; length=558bp
GGAATCTTTGAAAAACAAAGCCAGAGCTTTCAGAATGTCTGGAGAAGAAG
AAGAGAACGCGGCCGAGCTTAAAATTGGAGACGAGTTTTTGAAGGCCAAG
TGTTTGATGAATTGTGAAGTAGCAATAATTCTTGATCACAAGTATGAGCA
GCTTCAGCAGACTTCTGATGATCCCATGAATCAAGTTTCCCAAGTGTTTG
AGAAATCACTGCAGTATGTGAAGCGCTTTAGTCGCTACAAGAATCCTGAT
GCTGTTAGACAAGTGCGAGAAATCCTTAGTAGATACCAGTTGGCTGAATT
CGAGCTGTGTGTACTTGGAAATCTTTGCCCTGAGACCGTGGAGGAAGCCA
TTGCTATGGTACCTTCTATAAAGACCAGGGGACGAGCTCACGATGACGAG
GCAATTGAGAAAATGTTGAATGACTTGTCACTGATAAGGAAATTTGAGTA
ATCACAGCTGGAGCTACCTATTGAAGTTTCTTAGGGATTAAAAAAAAAAT
GCATTAGGTATTGTAATGTATAAAGTTTGAATGCGAGAGAGATCTATTTA
CTTATTGG
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