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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggtgccgcccgtggctgcagccttgtagctgagggttgcagggagccatcggccgtgctaactgattgggagcagcgtcacgggacaggacttggcggatcatttgaccatgcagaagatgacgtgacgcccgctgacttgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGACGAGTCTCCCGCCAACGTGGACGCCGCAAAGATGTGGCGTGAAAACCGGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP03036
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|22072232|gb|BQ821570.1|BQ821570
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCC
EST: gi|10786718|gb|AV643390.1|AV643390
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCA
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCA
EST: gi|22068643|gb|BQ818495.1|BQ818495
EST:     CCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: CCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|9458744|gb|BE452391.1|BE452391
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|10780562|gb|AV637242.1|AV637242
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|22065634|gb|BQ816458.1|BQ816458
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|15370119|gb|BI529545.1|BI529545
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|15369580|gb|BI529006.1|BI529006
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGGCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|22076740|gb|BQ825516.1|BQ825516
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|23365625|gb|BU653445.1|BU653445
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|14239428|gb|BG858244.1|BG858244
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|49463699|gb|BP091612.1|BP091612
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|6545148|gb|AV390932.1|AV390932
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCCATCATCTCCATGCTATCGTCCCCCA-CGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|8576455|gb|BE128996.1|BE128996
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|22076252|gb|BQ825028.1|BQ825028
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|10770484|gb|AV621309.1|AV621309
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|22049970|gb|BQ809002.1|BQ809002
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|22068226|gb|BQ818165.1|BQ818165
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|10772869|gb|AV623692.1|AV623692
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|10126146|gb|BE724850.1|BE724850
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
EST: gi|10784030|gb|AV640702.1|AV640702
EST:     ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACG                         GTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC
genomic: ACCCCAGCGGTTACGAGACCGCGGCGGAGCGCTGGTCACCAGTGCACACGgtaaggtgcc ... tgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcggatcatttgaccatgcagaagatgacgtgacgcccgctgacttgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGACGAGTCTCCCGCCAACGTGGACGCCGCAAAGATGTGGCGTGAAAACCGGG
                                     cgctgac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggtgccgcccgtggctgcagccttgtagctgagggttgcagggagccatcggccgtgctaactgattgggagcagcgtcacgggacaggacttggcggatcatttgaccatgcagaagatgacgtgacgcccgctgacttgcgctgcagGTGGAGACCATTATGATCTCAATCATCTCCATGCTATCGTCCCCCAACGACGAGTCTCCCGCCAACGTGGACGCCGCAAAGATGTGGCGTGAAAACCGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
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