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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agggcataggcgtttcgtctttttcttgagtaatagcgtatgttgctcactgaaatctatcatatcgataattttcttcgttcgtttttgttgttttcagAACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCCTAGGCATCTTGTCCAACTTGAAGATGCATACATTCCCCAACTTCTGCGT

Basic information

species Physcomitrella patens
transcript PP1S323_18V6.2
intron # 6
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|37830766|gb|BJ588778.1|BJ588778
EST:     GTTGAGCTATGCCCCATCCTTCGAGCTTTATACAAGATTCTTATTCAAAA                         AACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCC
genomic: GTTGAGCTATGCCCCATCCTTCGAGCTTTATACAAGATTCTTATTCAAAAgtaagtctgt ... ttgttttcagAACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCC
EST: gi|208395137|gb|DC923936.1|DC923936
EST:     GTTGAGCTATGCCCCATCCTTCGAGCTTTATACAAGATTCTTATTCAAAA                         AACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCC
genomic: GTTGAGCTATGCCCCATCCTTCGAGCTTTATACAAGATTCTTATTCAAAAgtaagtctgt ... ttgttttcagAACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCC
EST: gi|37849416|gb|BJ607424.1|BJ607424
EST:     GTTGAGCTATGCCCCATCCTTCGAGCTTTATACAAGATTCTTATTCAAAA                         AACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCC
genomic: GTTGAGCTATGCCCCATCCTTCGAGCTTTATACAAGATTCTTATTCAAAAgtaagtctgt ... ttgttttcagAACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcactgaaatctatcatatcgataattttcttcgttcgtttttgttgttttcagAACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCCTAGGCATCTTGTCCAACTTGAAGATGCATACATTCCCCAACTTCTGCGT
 tgctcac  putative branch site (score: 2)
                          ttttcttcgttcgttt  putative PPT
                atatcgataatttt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agggcataggcgtttcgtctttttcttgagtaatagcgtatgttgctcactgaaatctatcatatcgataattttcttcgttcgtttttgttgttttcagAACTGCTTCCATCACAGCCATTGTGGAAGGCTACATGAGCGAATATGATCCTAGGCATCTTGTCCAACTTGAAGATGCATACATTCCCCAACTTCTGCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG