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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgctaataataagggtaaaatatatgtttgatccagagcagaccgttttaatattctgtcttagatatatttttttgtgctttcgtgatgtggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATTTCTAACCTCAACAGTTTTACACATTTTTCATCTGCCGCCTCTCCAGATG

Basic information

species Physcomitrella patens
transcript PP1S162_167V6.1
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|100382751|gb|BY986923.1|BY986923
EST:     TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAG                         AGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
genomic: TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAGgtactgcttc ... tggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
EST: gi|100412409|gb|BY974719.1|BY974719
EST:     TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAG                         AGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
genomic: TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAGgtactgcttc ... tggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
EST: gi|161979270|gb|EE296328.1|EE296328
EST:     TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAG                         AGATGGACCGCCTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
genomic: TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAGgtactgcttc ... tggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
EST: gi|162273781|gb|FC449712.1|FC449712
EST:     TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAG                         AGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT
genomic: TGTTTTCCACGAAGTTGAGTGGCACCGAATTTCTCTCTCCACTCTCCAAGgtactgcttc ... tggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaatattctgtcttagatatatttttttgtgctttcgtgatgtggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATTTCTAACCTCAACAGTTTTACACATTTTTCATCTGCCGCCTCTCCAGATG
 ttttaat  putative branch site (score: 3)
             tcttagatatattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgctaataataagggtaaaatatatgtttgatccagagcagaccgttttaatattctgtcttagatatatttttttgtgctttcgtgatgtggtgcgcagAGATGGACCGCTTTTTCGCTTCATCGTGCAGTGCCCCAAGTTTCTTCTATTTCTAACCTCAACAGTTTTACACATTTTTCATCTGCCGCCTCTCCAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG