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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgccggccgtggctttggggtcggtgtggaaatcaggacgctgtatggcgatgtcgcggcagggcaaggcgggcgtgtgagttgcagtccggcgataatgccggggctggtggtatgtagccccaaaactgctgtacctgaaagcgccagtttctcacgctctacgcctcgccctgccgcgccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAACGCCAAGATGGTGGAGTTCGCCAACCGCGGCTTCCGCTCCCTGGGTGTGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP08073
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|22074664|gb|BQ823567.1|BQ823567
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|49469845|gb|BP097706.1|BP097706
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGA
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGA
EST: gi|10792400|gb|AV629766.1|AV629766
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|10787889|gb|AV644561.1|AV644561
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|10790641|gb|AV628007.1|AV628007
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|10794131|gb|AV631497.1|AV631497
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|10794395|gb|AV631761.1|AV631761
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|10790877|gb|AV628243.1|AV628243
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
EST: gi|49466540|gb|BP094453.1|BP094453
EST:     TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAG                         GTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC
genomic: TGGACCAGGAGACCGGCCGCGTCTTCCGCCTGCTCAAGGGCTCGCCCCAGgtgcgccggc ... ccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgaaagcgccagtttctcacgctctacgcctcgccctgccgcgccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAACGCCAAGATGGTGGAGTTCGCCAACCGCGGCTTCCGCTCCCTGGGTGTGG
               ttctcac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgccggccgtggctttggggtcggtgtggaaatcaggacgctgtatggcgatgtcgcggcagggcaaggcgggcgtgtgagttgcagtccggcgataatgccggggctggtggtatgtagccccaaaactgctgtacctgaaagcgccagtttctcacgctctacgcctcgccctgccgcgccacacacagGTGGTTCTGGGCAAGGCGTACAACAAGGACACTCTGGCCGACAACGTGAACGCCAAGATGGTGGAGTTCGCCAACCGCGGCTTCCGCTCCCTGGGTGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG