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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagggctgtgaaaaggggttcagagacgggctcaggagacggcgtgaacagtagggtaacgtgtgaccagtgggccgcaaggagcagcagcggaatgcgaggctgtgcttggccagttttccttctgcgcatgccttctccactggtcgtgacaccctctcctgtccgctcgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98397
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|10782963|gb|AV639635.1|AV639635
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGAAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10788132|gb|AV644804.1|AV644804
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10784113|gb|AV640785.1|AV640785
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCT
EST: gi|10787070|gb|AV643742.1|AV643742
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCA
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCA
EST: gi|161813272|gb|FC101441.1|FC101441
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10787248|gb|AV643920.1|AV643920
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10786937|gb|AV643609.1|AV643609
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10787542|gb|AV644214.1|AV644214
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGACGAGCGCATCATGGACAGCAACGACCTGGAG
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAG
EST: gi|10789572|gb|AV645301.1|AV645301
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10785772|gb|AV642444.1|AV642444
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTG
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTG
EST: gi|49468183|gb|BP096044.1|BP096044
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10786776|gb|AV643448.1|AV643448
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGACGAGCGCATCATGGACAG
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAG
EST: gi|10783914|gb|AV640586.1|AV640586
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACG
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACG
EST: gi|10786981|gb|AV643653.1|AV643653
EST:     TGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: TGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10787514|gb|AV644186.1|AV644186
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10785156|gb|AV641828.1|AV641828
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
EST: gi|10787701|gb|AV644373.1|AV644373
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGAC
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGAC
EST: gi|23360235|gb|BU648055.1|BU648055
EST:     CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAG                         GCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT
genomic: CGCTGGTGGACGCTATGCTCAAGCAGTCCAAGGTGTTCCGTGACAACCAGgtgagggctg ... cgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcgcatgccttctccactggtcgtgacaccctctcctgtccgctcgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG
                             ccctctcctgtccgct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagggctgtgaaaaggggttcagagacgggctcaggagacggcgtgaacagtagggtaacgtgtgaccagtgggccgcaaggagcagcagcggaatgcgaggctgtgcttggccagttttccttctgcgcatgccttctccactggtcgtgacaccctctcctgtccgctcgctccgcagGCCACCGCCGAGCGCATCATGGACAGCAACGACCTGGAGCGCGAGCGCGGTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC