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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgaaagttcactgcccagcaatttggcgccggaagcgcatcgaccccaaacacactcctgcttgccctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAGGCTGTGGCACGGTTACAAGTAATCGCTGAAGAGGGCAACATGCCCAACG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98380
intron # 1
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|34983941|gb|CF557858.1|CF557858
EST:     CAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|22058612|gb|BQ813039.1|BQ813039
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|22058607|gb|BQ813038.1|BQ813038
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|8287554|gb|BE025113.1|BE025113
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|16436997|gb|BM002217.1|BM002217
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|49460155|gb|BP088068.1|BP088068
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|161794755|gb|FC077353.1|FC077353
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|15697306|gb|BI721611.1|BI721611
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|49460327|gb|BP088240.1|BP088240
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|23360447|gb|BU648267.1|BU648267
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACCGAA
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|15704437|gb|BI728742.1|BI728742
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|34983940|gb|CF557857.1|CF557857
EST:     CAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|15698627|gb|BI722932.1|BI722932
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
EST: gi|15698700|gb|BI723021.1|BI723021
EST:     CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGG                         CTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG
genomic: CCAAGCCTCCGGAAGAGACGGCAACAAAGGGTGGATATGAGCTGCCTTGGgtgagcgaaa ... cctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttggcgccggaagcgcatcgaccccaaacacactcctgcttgccctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAGGCTGTGGCACGGTTACAAGTAATCGCTGAAGAGGGCAACATGCCCAACG
                                  ctcctgcttgccct  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcgaaagttcactgcccagcaatttggcgccggaagcgcatcgaccccaaacacactcctgcttgccctgctgcagCTGGAGAAGTACCGTCCGCAATTCATCAATGAAATTGTGGGAAATACGGAGGCTGTGGCACGGTTACAAGTAATCGCTGAAGAGGGCAACATGCCCAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG