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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttctgcatattttcaggcttttttgagaggttttggacgaggtcgacgctagcgactggtgatgaaaaggatacttggtttggtggttatctggttttgttgaggaggtttcttgtgattgagtttggatacgaacgtggagccgctcgcgaccgttttaggtgttgaggtggtacgtgttggcatttagGACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGGAGGGCGTTTTACGGGTTGTTGGAGCGGGATCTTGAGGAGTACAGGTTTT

Basic information

species Physcomitrella patens
transcript PP1S77_164V6.1
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|100376603|gb|BY986246.1|BY986246
EST:     TGGACCTTCGCCCGATCGACCGTGATCTGCAAGTTTCGTTTCGCTCAGGA                         GACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGG
genomic: TGGACCTTCGCCCGATCGACCGTGATCTGCAAGTTTCGTTTCGCTCAGGAgtaagctttc ... tggcatttagGACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGG
EST: gi|67572631|gb|BJ945455.1|BJ945455
EST:     TGGACCTTCGCCCGATCGACCGTGATCTGCAAGTTTCGTTTCGCTCAGGA                         GACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGG
genomic: TGGACCTTCGCCCGATCGACCGTGATCTGCAAGTTTCGTTTCGCTCAGGAgtaagctttc ... tggcatttagGACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGG
EST: gi|162211635|gb|FC387923.1|FC387923
EST:     TGGACCTTCGCCCGATCGACCGTGATCTGCAAGTTTCGTTTCGCTCAGGA                         GACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGG
genomic: TGGACCTTCGCCCGATCGACCGTGATCTGCAAGTTTCGTTTCGCTCAGGAgtaagctttc ... tggcatttagGACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtggagccgctcgcgaccgttttaggtgttgaggtggtacgtgttggcatttagGACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGGAGGGCGTTTTACGGGTTGTTGGAGCGGGATCTTGAGGAGTACAGGTTTT
                    tttta  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctttctgcatattttcaggcttttttgagaggttttggacgaggtcgacgctagcgactggtgatgaaaaggatacttggtttggtggttatctggttttgttgaggaggtttcttgtgattgagtttggatacgaacgtggagccgctcgcgaccgttttaggtgttgaggtggtacgtgttggcatttagGACTATCGAGGCGACTGCACGACGACGGTCGAGGTTAGGGTTTCGGCGCGGAGGGCGTTTTACGGGTTGTTGGAGCGGGATCTTGAGGAGTACAGGTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG