CK935472

Overview
NameCK935472
Unique NameCK935472
TypeEST
OrganismCitrus sinensis (Sweet orange)
Sequence length670
Libraries
Library NameType
Developing fruit 24 DAFBcdna_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
CK935472_ssr46 microsatellite CK935472_ssr46:46..57. BLAST: Citrus ESTs to Prunus persica proteins V1
Csv1_Contig10097 contig Csv1_Contig10097:1..660. BLAST: Citrus Unigene V1 Contigs to Prunus persica proteins V1
Homology
BLAST of CK935472 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: 104.375 bits (259), Expect = 5.715e-22
Identity = 53/137 (38.69%), Postives = 91/137 (66.42%), Query Frame = 2
Query:   41 SGEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRNKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKFE 451
            +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+   + F+
Sbjct:   10 AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNYTARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FEDEELQQILDDIQTKRSFQ 141          
BLAST of CK935472 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: 104.375 bits (259), Expect = 5.715e-22
Identity = 53/137 (38.69%), Postives = 91/137 (66.42%), Query Frame = 2
Query:   41 SGEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRNKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKFE 451
            +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+   + F+
Sbjct:   10 AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNYTARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FEDEELQQILDDIQTKRSFQ 141          
BLAST of CK935472 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: 93.5893 bits (231), Expect = 1.009e-18
Identity = 53/155 (34.19%), Postives = 87/155 (56.13%), Query Frame = 2
Query:   23 PRAFRMSGEEEENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDD-------------PMNQVSQVFEKSLQYVKRFSRNKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDLSLIKKF 448
            P   R   +EEE+   LK   +   AK L+N EVAI+L+H+    +    +              +N + + F K+L Y ++FSR KN  +++QVR  LS+  L EFE+  L NLCPE  +EA +++PS+K      +D+ ++ +L++LS ++KF
Sbjct:    4 PLIKRSGIQEEEDLTTLKFPRDLKDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSINDIIRTFHKTLAYAEKFSRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIPSLKKM----EDDELQAILDELSNLRKF 154          
BLAST of CK935472 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: 88.9669 bits (219), Expect = 2.485e-17
Identity = 48/126 (38.10%), Postives = 78/126 (61.90%), Query Frame = 2
Query:   53 EENAAELKIGDEFLKAKCLMNCEVAIILDHKYEQLQQTSDDPMNQVSQVFEKSLQYVKRFSRNKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 430
            +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+
Sbjct:   11 DEDAADLQFPKEFENAETLLISEVHMLLDHR--KRQNESADEEQEFSEVFMKTYAYTDSFRKFKNKETIMSARSLLMQKKLHKFELAALGNLCPEAPEEAKALIPSLEGR---FEDEELRQILDDI 131          
The following BLAST results are available for this feature:
BLAST of CK935472 vs. ExPASy Swiss-Prot
Analysis Date: 2010-05-10 (BLAST: Citrus ESTs to SwissProt)
Total hits: 4
Match NameE-valueIdentityDescription
RPB4_MOUSE5.715e-2238.69DNA-directed RNA polymerase II subunit RPB4 OS=Mus... [more]
RPB4_HUMAN5.715e-2238.69DNA-directed RNA polymerase II subunit RPB4 OS=Hom... [more]
RPB4_DICDI1.009e-1834.19DNA-directed RNA polymerase II subunit rpb4 OS=Dic... [more]
RPB4_DROME2.485e-1738.10DNA-directed RNA polymerase II 16 kDa polypeptide ... [more]
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Properties
Property NameValue
Genbank descriptionCGF1004555_B11 Developing fruit 24 DAFB Citrus sinensis cDNA clone T24DAB0004_IVF_B11 5, mRNA sequence.
Sequences
The following sequences are available for this feature:

EST sequence

>CK935472 ID=CK935472; Name=CK935472; organism=Citrus sinensis; type=EST; length=670bp
GGGGGAATTTTGAANNNCAAAGCCAAGAGCTTTCAGAATGTCTGGAGAAG
AAGAAGAGAACGCGGCCGAGCTTAAAATTGGAGACGAGTTTTTGAAGGCC
AAGTGTTTGATGAATTGTGAAGTAGCAATAATTCTTGATCACAAGTATGA
GCAGCTTCAGCAGACTTCTGATGATCCCATGAATCAAGTTTCCCAAGTGT
TTGAGAAATCACTGCAGTATGTGAAGCGCTTTAGTCGCAACAAGAATCCT
GATGCTGTTAGACAAGTGCGAGAAATCCTTAGTAGATACCAGTTGGCTGA
ATTCGAGCTGTGTGTACTTGGAAATCTTTGCCCTGAGACCGTGGAGGAAG
CCATTGCTATGGTACCTTCTATAAAGACCAGGGGACGAGCTCACGATGAC
GAGGCAATTGAGAAAATGTTGAATGACTTGTCACTGATAAAGAAATTTGA
GTAATCACAGCTGGAGCTACCTATTGAAGTTTCTTAGGGATTAAAAAAAA
AATGCATTAGGTATTGTAATGTATAAAGTTTGAATGCGAGAGAGAATCTA
TTTACTTTATTGGTCAGATATTACGAGGATCTTGATGAAATCAGATATTA
CGAATATCTTGTTGAAATGAGTTTCCAATCAAATTGAAGCTAAAAAAAAA
AAAAAAAAAAAAAAAAAAAA
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