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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTAACGGTACTGCACCAGAGCCCCGCAAGGGTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacagagattacctggtttattcaatatcttcgagattttagcatttgcttattaatgaagagattcgttgccgtttgagaaggtatgtccataatttgctcaccgtagtatcaacggagacagtaaactctctgtatacgttttgcag

Basic information

species Physcomitrella patens
transcript PP1S78_4V6.2
intron # 9
splice site 5'
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|67725353|gb|BJ975612.1|BJ975612
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|162277312|gb|FC453118.1|FC453118
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|6166916|gb|AW145180.1|AW145180
EST:     GTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|162268668|gb|FC445165.1|FC445165
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|162268669|gb|FC445166.1|FC445166
EST:     TGTTCGTGGTGGGCATATTCCTGGCCAGCA-GTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCG
genomic: TGTTCGTGGTGGGCATATTCCTGGC-AGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCG
EST: gi|18334696|gb|BJ166713.1|BJ166713
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67695705|gb|BJ955938.1|BJ955938
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|208370489|gb|DC952192.1|DC952192
EST:     GTNNTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|37852646|gb|BJ610654.1|BJ610654
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67726274|gb|BJ976533.1|BJ976533
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|162273260|gb|FC449241.1|FC449241
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67508643|gb|BJ941504.1|BJ941504
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67725181|gb|BJ975440.1|BJ975440
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67724933|gb|BJ975192.1|BJ975192
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67695360|gb|BJ955593.1|BJ955593
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|18335656|gb|BJ167676.1|BJ167676
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
EST: gi|67572332|gb|BJ945156.1|BJ945156
EST:     GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAG                         GTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA
genomic: GTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacag ... cgttttgcagGTTCTGAGCCCGACTGGAACACTTCTGCCTGCCGAGGAGCTCGGCTCTAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTAACGGTACTGCACCAGAGCCCCGCAAGGGTGTTCGTGGTGGGCATATTCCTGGCAGCAAGTGTGTACCATTCACTGAGgtattaacagagattacctggtttattcaatatcttcgagattttagcatttgcttattaatgaagagattcgttgccgtttgagaaggtatgtccataatttgctcaccgtagtatcaacggagacagtaaactctctgtatacgttttgcag

- - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG