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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTTGACAAGCAGAGGCTTCATAGAGGAAGATTTCGAGAAAGTTGCTGAGTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagacttatactaactattattttctttgaaacgacgggcagagaaagtgctggttgtacacatctttgatgtattaatccttccgtttgtaactgaatcaatactccgcattgtattctggttatag

Basic information

species Physcomitrella patens
transcript PP1S79_54V6.1
intron # 14
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|37851231|gb|BJ609239.1|BJ609239
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|162182304|gb|FC357175.1|FC357175
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37852647|gb|BJ610655.1|BJ610655
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|162155360|gb|FC331766.1|FC331766
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37845693|gb|BJ603701.1|BJ603701
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37850584|gb|BJ608592.1|BJ608592
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37847210|gb|BJ605218.1|BJ605218
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37850496|gb|BJ608504.1|BJ608504
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|67698707|gb|BJ958940.1|BJ958940
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|208388379|gb|DC949323.1|DC949323
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|162220548|gb|FC395213.1|FC395213
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|162220547|gb|FC395212.1|FC395212
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37840030|gb|BJ598038.1|BJ598038
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|162222596|gb|FC398747.1|FC398747
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37838492|gb|BJ596500.1|BJ596500
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|37833067|gb|BJ591079.1|BJ591079
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|67575248|gb|BJ948072.1|BJ948072
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAG
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAG
EST: gi|37838309|gb|BJ596317.1|BJ596317
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
EST: gi|162179834|gb|FC355905.1|FC355905
EST:     GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAG                         GTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC
genomic: GTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagactta ... ctggttatagGTGCAAAGTTGAAGGACTTTAGGGCAGCTGTGGACACTGATCCCGAGATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTTGACAAGCAGAGGCTTCATAGAGGAAGATTTCGAGAAAGTTGCTGAGTTCTTTGACCGAGCGGTTGGAATCGCTGTGAAGGTCAAGAAGTCCACAGgtgagacttatactaactattattttctttgaaacgacgggcagagaaagtgctggttgtacacatctttgatgtattaatccttccgtttgtaactgaatcaatactccgcattgtattctggttatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT