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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttggacagtagagaaatttgtcagtcgtgaagctttccttgcagATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCCCAAGGATGTGGTGGCGCAACGGGCATTGTGAGAGGGGATGCTGTCTACG

Basic information

species Selaginella moellendorffii
transcript EFJ12233
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|169072000|gb|FE477689.1|FE477689
EST:     ACGACCTCCCTCTCGAGATTCCAATCGGCTTCCACAACGAAATTACTTAT                         ATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCC
genomic: ACGACCTCCCTCTCGAGATTCCAATCGGCTTCCACAACGAAATTACTTATgtaagcttgg ... ttccttgcagATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCC
EST: gi|169072001|gb|FE477690.1|FE477690
EST:     ACGACCTCCCTCTCGAGATTCCAATCGGCTTCCACAACGAAATTACTTAT                         ATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCC
genomic: ACGACCTCCCTCTCGAGATTCCAATCGGCTTCCACAACGAAATTACTTATgtaagcttgg ... ttccttgcagATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCC
EST: gi|169109530|gb|FE514137.1|FE514137
EST:     ACGACCTCCCTCTCGAGATTCCAATCGGCTTCCACAACGAAATTACTTAT                         ATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCC
genomic: ACGACCTCCCTCTCGAGATTCCAATCGGCTTCCACAACGAAATTACTTATgtaagcttgg ... ttccttgcagATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagcttggacagtagagaaatttgtcagtcgtgaagctttccttgcagATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCCCAAGGATGTGGTGGCGCAACGGGCATTGTGAGAGGGGATGCTGTCTACG
                                               ctttccttgc  CT-rich tract
                      agaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttggacagtagagaaatttgtcagtcgtgaagctttccttgcagATGCCCGTCATTCCCGACGTGCTTGTTTTCTACTGCGAGGTTGCACCGCCCCAAGGATGTGGTGGCGCAACGGGCATTGTGAGAGGGGATGCTGTCTACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG