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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctggggtctgcggcttcgctgggcctgtctggtaacttcggacgggtctagatggatacacgacagctgacacgcgtgtcgcgccttgtgatgtgcgcagGTGATCGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTACATCAGCG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98596
intron # 8
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|8287231|gb|BE024790.1|BE024790
EST:     AGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAG                         GTGATTGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTAC
genomic: AGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAGgtggggagcg ... atgtgcgcagGTGATCGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTAC
EST: gi|161798329|gb|FC083512.1|FC083512
EST:     CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCCTTCTCCACCCCCGAG     
genomic: CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|10768967|gb|AV619792.1|AV619792
EST:     AGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAG                         GTGATCGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTAC
genomic: AGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAGgtggggagcg ... atgtgcgcagGTGATCGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTAC
EST: gi|6541232|gb|AV387016.1|AV387016
EST:     CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|15370170|gb|BI529596.1|BI529596
EST:     TCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: TCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|15698489|gb|BI722794.1|BI722794
EST:     CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|10772473|gb|AV623296.1|AV623296
EST:     CTACA-TGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: CTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|15696926|gb|BI721231.1|BI721231
EST:     CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|15368002|gb|BI527428.1|BI527428
EST:     CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|15367759|gb|BI527185.1|BI527185
EST:     CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: CCTACATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|10779613|gb|AV636293.1|AV636293
EST:     AAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: AAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag
EST: gi|16072373|gb|BI874369.1|BI874369
EST:     ATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAG     
genomic: ATTGTGGAGGGCGGCAGCTCCAAGAACTTCGCGCACATCAAGAAGATGGCTTTCTCCACCCCCGAGgtgag


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctagatggatacacgacagctgacacgcgtgtcgcgccttgtgatgtgcgcagGTGATCGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTACATCAGCG
                   agctgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctggggtctgcggcttcgctgggcctgtctggtaacttcggacgggtctagatggatacacgacagctgacacgcgtgtcgcgccttgtgatgtgcgcagGTGATCGACAGCGTGCGCAAGACCCACCCCGACCTGCCCATCATCCTCTACATCAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -atacacg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacgcg