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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtggaggtgcatcttggggagcccttcgcgcgaatgggaacggtgccggcgcatgggccttgtcggttgtcaccgatggttcccaatgctatgtccatttgctaaatacccatccaattttatgtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGCATGCCCTCCGCTGGTGCCCCCGCCGCTGGTGGCGACGACGACG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98665
intron # 4
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|34993690|gb|CF567607.1|CF567607
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|16436386|gb|BM001606.1|BM001606
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATG
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATG
EST: gi|10772407|gb|AV623230.1|AV623230
EST:     ACCAGATGGGGCCAGACAGACTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGACTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10783596|gb|AV640268.1|AV640268
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10777068|gb|AV633748.1|AV633748
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|6545895|gb|AV391679.1|AV391679
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGTCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|6547029|gb|AV392813.1|AV392813
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGTGCAGCATGCTGGGCGGCCTCGG
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGG-GCAGCATGCTGGGCGGCCTCGG
EST: gi|10769591|gb|AV620416.1|AV620416
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10772163|gb|AV622986.1|AV622986
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGTGTGGC-TGTGCAGCATGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCG-GTGGCCTGGGCAGCATGC
EST: gi|23367125|gb|BU654944.1|BU654944
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10778678|gb|AV635358.1|AV635358
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGNCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|34984847|gb|CF558764.1|CF558764
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|6547417|gb|AV393201.1|AV393201
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|6545428|gb|AV391212.1|AV391212
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGCGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10125857|gb|BE724561.1|BE724561
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGNGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10772132|gb|AV622955.1|AV622955
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|34987286|gb|CF561203.1|CF561203
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|16431118|gb|BI996344.1|BI996344
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|7686988|gb|AW757636.1|AW757636
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10782372|gb|AV639052.1|AV639052
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGG
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGG
EST: gi|34987287|gb|CF561204.1|CF561204
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|15370641|gb|BI530067.1|BI530067
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|23365482|gb|BU653302.1|BU653302
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|22055775|gb|BQ812025.1|BQ812025
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|14229377|gb|BG848193.1|BG848193
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10780185|gb|AV636865.1|AV636865
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|34993249|gb|CF567166.1|CF567166
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|49462179|gb|BP090092.1|BP090092
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|15695686|gb|BI719991.1|BI719991
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10773890|gb|AV624713.1|AV624713
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|34984848|gb|CF558765.1|CF558765
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|10780580|gb|AV637260.1|AV637260
EST:     ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGC
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGC
EST: gi|10769647|gb|AV620472.1|AV620472
EST:     CCAGGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
genomic: CCAG-ATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGC
EST: gi|49464431|gb|BP092344.1|BP092344
EST:     ACCAGATGGGGCCAGACAGACTGGTGCACCTGAAGAAGATGATGCAGCAG                         CTGGGCGCTGGCATGCCCGGTGGCCTGTGCAGCATGCTGGGCGCGC-TCGG
genomic: ACCAGATGGGGCCAGACAGCCTGGTGCACCTGAAGAAGATGATGCAGCAGgtgtggaggt ... gtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCG-GCCTCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcccaatgctatgtccatttgctaaatacccatccaattttatgtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGCATGCCCTCCGCTGGTGCCCCCGCCGCTGGTGGCGACGACGACG
                     tgctaaa  putative branch site (score: 2)
                                     aattttatgt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtggaggtgcatcttggggagcccttcgcgcgaatgggaacggtgccggcgcatgggccttgtcggttgtcaccgatggttcccaatgctatgtccatttgctaaatacccatccaattttatgtgctcgcagCTGGGCGCTGGCATGCCCGGTGGCCTGGGCAGCATGCTGGGCGGCCTCGGCATGCCCTCCGCTGGTGCCCCCGCCGCTGGTGGCGACGACGACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG