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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtatgccccgtacgcgcttgcaaagcagtccagcgcactctgggtacctgtatggtctcctgataacccatatgctgcccccttcaccccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACTGGAGGGCAACGCCCCCAACCCGCTGGCCGGCCTGTTCGGCGGCTCGGGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04477
intron # 3
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|7616103|gb|AW721543.1|AW721543
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|161817645|gb|FC099960.1|FC099960
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|10774493|gb|AV625316.1|AV625316
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|161796751|gb|FC083185.1|FC083185
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|23361841|gb|BU649661.1|BU649661
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|16073534|gb|BI875530.1|BI875530
EST:     GCCCACATCGCTCTGCCTGATGGAGGCAAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTC
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTC
EST: gi|23365484|gb|BU653304.1|BU653304
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|23363018|gb|BU650838.1|BU650838
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|15370284|gb|BI529710.1|BI529710
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGA
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGA
EST: gi|14233514|gb|BG852330.1|BG852330
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|34984572|gb|CF558489.1|CF558489
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAG
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAG
EST: gi|6543760|gb|AV389544.1|AV389544
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCA
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCA
EST: gi|23360374|gb|BU648194.1|BU648194
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|23360664|gb|BU648484.1|BU648484
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGAT                         CTTTAAGAACTCCATCCACCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACT
EST: gi|23365035|gb|BU652855.1|BU652855
EST:     GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAAGAT                         CTTTAAGAACTC
genomic: GTCCACATCGTTCTGCCTGATGGAGGCGAGCACGCGCGCACGTGCAGGATgtgagtagcg ... ccacccacagCTTTAAGAACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacctgtatggtctcctgataacccatatgctgcccccttcaccccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACTGGAGGGCAACGCCCCCAACCCGCTGGCCGGCCTGTTCGGCGGCTCGGGG
                 tgataac  putative branch site (score: 2)
                                  cccccttcaccccacc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtatgccccgtacgcgcttgcaaagcagtccagcgcactctgggtacctgtatggtctcctgataacccatatgctgcccccttcaccccacccacagCTTTAAGAACTCCATCCAGCTGGCGGAGGGTGTGACGGTGGGCCACCTACTGGAGGGCAACGCCCCCAACCCGCTGGCCGGCCTGTTCGGCGGCTCGGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - - -ctgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acccata