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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtggcatagcggggttacgtgggggaggagggaaggccggcgccgcacggcggcgtggctgggggttgtgtttggcacggtgtgtgcctaacaacgccgctgctctccctgccatccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAACCCCGCTGAGCGCACCTACCCCGAGGAGATGATCCAGACGGGTATCTCC

Basic information

species Chlamydomonas reinhardtii
transcript EDP06821
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|161803990|gb|FC093866.1|FC093866
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22052127|gb|BQ810062.1|BQ810062
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|161814932|gb|FC104271.1|FC104271
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22048308|gb|BQ808162.1|BQ808162
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22067891|gb|BQ817895.1|BQ817895
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|239842040|gb|GR283897.1|GR283897
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|14237352|gb|BG856168.1|BG856168
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|10783647|gb|AV640319.1|AV640319
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTNCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|161814739|gb|FC102856.1|FC102856
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|161823222|gb|FC110068.1|FC110068
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|10779564|gb|AV636244.1|AV636244
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTT
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTT
EST: gi|10771727|gb|AV622550.1|AV622550
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|10771338|gb|AV622161.1|AV622161
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGCACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|161795582|gb|FC085044.1|FC085044
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|161797450|gb|FC086289.1|FC086289
EST:     GATATGCTCGCCCGCGTGTTCAACGGCTCGAGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGGGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22048309|gb|BQ808163.1|BQ808163
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|8513876|gb|BE121771.1|BE121771
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|9460338|gb|BE453182.1|BE453182
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22069109|gb|BQ818793.1|BQ818793
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|49469857|gb|BP097718.1|BP097718
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22058330|gb|BQ812952.1|BQ812952
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22052850|gb|BQ810438.1|BQ810438
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|9210891|gb|BE337806.1|BE337806
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTTCATCAA
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAA
EST: gi|22052813|gb|BQ810413.1|BQ810413
EST:     GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGG                         CCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCG
genomic: GATATGCTCGGCCGCGTGTTCAACGGCTCGGGCAAGCCCATTGACGGCGGgtgagtggca ... ccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggcacggtgtgtgcctaacaacgccgctgctctccctgccatccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAACCCCGCTGAGCGCACCTACCCCGAGGAGATGATCCAGACGGGTATCTCC
               gcctaac  putative branch site (score: 2)
                                ctctccctgccatcc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtggcatagcggggttacgtgggggaggagggaaggccggcgccgcacggcggcgtggctgggggttgtgtttggcacggtgtgtgcctaacaacgccgctgctctccctgccatccgaatgcagCCCCCCGATTCTGGCTGAGCAGTTCCTGGACATCACCGGTGCCTCCATCAACCCCGCTGAGCGCACCTACCCCGAGGAGATGATCCAGACGGGTATCTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG