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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagatttctgtcaatttatgttggacacatcctcctaggaagttttgtctttttctctgacttaaccatgaattcgtagtttatcagaatagttttgtactgaatgtcgcaacttacgcttgatgtctacgctaaagcactgtatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTTGCTGCTGGCGCAGATGTTGTTGGAGCCGACGACCTTGTGGATCGCATCA

Basic information

species Physcomitrella patens
transcript PP1S94_163V6.3
intron # 3
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|208365036|gb|DC931114.1|DC931114
EST:     ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAG                         GTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAAGCTCTG
genomic: ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAGgtatgtagat ... tatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT
EST: gi|19788183|gb|BQ040734.1|BQ040734
EST:     ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAG                         GTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT
genomic: ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAGgtatgtagat ... tatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT
EST: gi|37823437|gb|BJ581503.1|BJ581503
EST:     ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAG                         GTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGGGGCTCTT
genomic: ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAGgtatgtagat ... tatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT
EST: gi|208369602|gb|DC936350.1|DC936350
EST:     ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAG                         GTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT
genomic: ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAGgtatgtagat ... tatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT
EST: gi|67577911|gb|BJ950078.1|BJ950078
EST:     ATGGTTCGTGGGGCCGCAACTCTTCCAA-TGGAAGTGGCAAG                         GTGGTGAGAGTTGCTGT
genomic: ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAGgtatgtagat ... tatttttcagGTGGTGAGAGTTGCTGT
EST: gi|208362199|gb|DC939623.1|DC939623
EST:     ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAG                         GTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCCCAAGAGGCTCTT
genomic: ATGGTTCGTGGGGCCGCAACTCTTCCAAATGGAAGTGGCAAGgtatgtagat ... tatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgaatgtcgcaacttacgcttgatgtctacgctaaagcactgtatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTTGCTGCTGGCGCAGATGTTGTTGGAGCCGACGACCTTGTGGATCGCATCA
                                             tatttttc  CT-rich tract
                                           tgtattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtagatttctgtcaatttatgttggacacatcctcctaggaagttttgtctttttctctgacttaaccatgaattcgtagtttatcagaatagttttgtactgaatgtcgcaacttacgcttgatgtctacgctaaagcactgtatttttcagGTGGTGAGAGTTGCTGTATTTGCAGAAGGATCGGAAGCTCAAGAGGCTCTTGCTGCTGGCGCAGATGTTGTTGGAGCCGACGACCTTGTGGATCGCATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG