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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaggggtatccagggaagccttaccatgcctgcttcgccaacgcccgcctcccgatagtaattggacacccctctccgcctcacatactcgcctgtccagGTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCGCTGCTGCCTTACATGGCGCTGTGGCGGCCCTACTCCAACCCTGACGCCA

Basic information

species Chlamydomonas reinhardtii
transcript EDO97874
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|14239275|gb|BG858091.1|BG858091
EST:     TCGCTGCTGGTG-CGGCCGGCC-CAAGCGAGAACAAG                         GTCCCCGCGTGGCCCTTCGTGACGCTATACTTTTTCTTGGGCGCCTTTGCG
genomic: TCGCTGCTGGTGCCGGCCGGCCGC-AGCGAGAACAAGgtgcggcagc ... gcctgtccagGTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCG
EST: gi|14239276|gb|BG858092.1|BG858092
EST:     GGCCATCTACGCGTCGCTGCTGGGTGCCG-CCGGCCGCAGCGAGAACAAG                         GTCCCCGCGTGGCCCTTC
genomic: GGCCATCTACGCGTCGCTGCTGG-TGCCGGCCGGCCGCAGCGAGAACAAGgtgcggcagc ... gcctgtccagGTCCCCGCGTGGCCCTTC
EST: gi|161793639|gb|FC080150.1|FC080150
EST:     CGGCCATCTACGCGTCGCTGCTGGTGCCGGCCGGCCGCAGCGAGAACAAG                         GTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTCGCG
genomic: CGGCCATCTACGCGTCGCTGCTGGTGCCGGCCGGCCGCAGCGAGAACAAGgtgcggcagc ... gcctgtccagGTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCG
EST: gi|15704576|gb|BI728897.1|BI728897
EST:     CGGCCATCTACGCGTCGCTGCTGGTGCCGGCCGGCCGCAGCGAGAACAAG                         GTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCG
genomic: CGGCCATCTACGCGTCGCTGCTGGTGCCGGCCGGCCGCAGCGAGAACAAGgtgcggcagc ... gcctgtccagGTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcctcccgatagtaattggacacccctctccgcctcacatactcgcctgtccagGTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCGCTGCTGCCTTACATGGCGCTGTGGCGGCCCTACTCCAACCCTGACGCCA
                                gcctcac  putative branch site (score: 3)
                                          ctcgcct  putative PPT
         atagtaatt  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaggggtatccagggaagccttaccatgcctgcttcgccaacgcccgcctcccgatagtaattggacacccctctccgcctcacatactcgcctgtccagGTCCCCGCGTGGCCCTTCGTGACGCTATCCTTTTTCTTGGGCGCCTTTGCGCTGCTGCCTTACATGGCGCTGTGGCGGCCCTACTCCAACCCTGACGCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - catgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatact