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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaaggtttcgatttggaatggttttcaagagctttcttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAATGGAACGAGCAGTACGGTGAAGGGGGCACTCGGAAGAAGGCGACACTGA

Basic information

species Selaginella moellendorffii
transcript EFJ34631
intron # 16
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|169030971|gb|FE440332.1|FE440332
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169024270|gb|FE435222.1|FE435222
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169052463|gb|FE462271.1|FE462271
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169069504|gb|FE480575.1|FE480575
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169115759|gb|FE517345.1|FE517345
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169107240|gb|FE504118.1|FE504118
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169070626|gb|FE480085.1|FE480085
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169082584|gb|FE489068.1|FE489068
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169081354|gb|FE489292.1|FE489292
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169076790|gb|FE485833.1|FE485833
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169063160|gb|FE471682.1|FE471682
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169092697|gb|FE494926.1|FE494926
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169064335|gb|FE471898.1|FE471898
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169044544|gb|FE450609.1|FE450609
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169034852|gb|FE444041.1|FE444041
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
EST: gi|169095446|gb|FE497552.1|FE497552
EST:     CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAG                         GTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA
genomic: CCTACATTCGTCCAATCTCAATGGCTGACATGCGGCACGCAATGGAGAAGgtgagaaggt ... ttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgagaaggtttcgatttggaatggttttcaagagctttcttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAATGGAACGAGCAGTACGGTGAAGGGGGCACTCGGAAGAAGGCGACACTGA
                                            ctttcttcgtc  CT-rich tract
                              ttttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagaaggtttcgatttggaatggttttcaagagctttcttcgtcacagGTTCGATCAAGCGTGTCCTCGGATGCTGGTATCATGGGAGAGTTGCAGCAATGGAACGAGCAGTACGGTGAAGGGGGCACTCGGAAGAAGGCGACACTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG