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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtatttttccatattcattttcgcaagttttgtagctttagttaattttgtgctaaagctttggtattacttgtaatttttgaaatgttgttccacaaaatgctgtagtggtccaaagagttcgaagaagaaacaattgacttactgagagatatggttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATTTATTACCTAAGAGATATTGGTGATGCTGATAAAATTGTTGAAGCCATCA

Basic information

species Physcomitrella patens
transcript PP1S90_28V6.1
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|208375453|gb|DC936996.1|DC936996
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|208361425|gb|DC935112.1|DC935112
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|18349313|gb|BJ181362.1|BJ181362
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100438617|gb|BY980047.1|BY980047
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|18355111|gb|BJ187170.1|BJ187170
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100444932|gb|BY982760.1|BY982760
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|162278698|gb|FC454808.1|FC454808
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100375395|gb|BY948855.1|BY948855
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100363976|gb|BY966264.1|BY966264
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100365162|gb|BY966841.1|BY966841
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAAGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100361319|gb|BY965781.1|BY965781
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100422495|gb|BY976402.1|BY976402
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|208360856|gb|DC934752.1|DC934752
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|162181159|gb|FC357604.1|FC357604
EST:     GGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: GGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100391837|gb|BY989572.1|BY989572
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100358498|gb|BY983936.1|BY983936
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100388010|gb|BY988483.1|BY988483
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|18331507|gb|BJ163518.1|BJ163518
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100445494|gb|CJ975643.1|CJ975643
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100385258|gb|BY950850.1|BY950850
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|162225064|gb|FC401688.1|FC401688
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100406861|gb|BY955754.1|BY955754
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100448660|gb|CJ972959.1|CJ972959
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100418007|gb|BY993291.1|BY993291
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|208385252|gb|DC915052.1|DC915052
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|208350379|gb|DC906081.1|DC906081
EST:     AGGGCGATATTTACNAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|162158960|gb|FC334820.1|FC334820
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|162178358|gb|FC355180.1|FC355180
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100386104|gb|BY970043.1|BY970043
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100362734|gb|BY947501.1|BY947501
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|18359114|gb|BJ191174.1|BJ191174
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|162237033|gb|FC413192.1|FC413192
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100444612|gb|BY982441.1|BY982441
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|67573440|gb|BJ946264.1|BJ946264
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100377879|gb|BY986439.1|BY986439
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100378191|gb|BY949726.1|BY949726
EST:     AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
EST: gi|100407816|gb|BY955792.1|BY955792
EST:     AGGGCGATATCTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACG                         TTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT
genomic: AGGGCGATATTTACGAGTATGGGACTCTGATTCTTGCAACAGGCTCCACGgtgggtattt ... ttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaaagagttcgaagaagaaacaattgacttactgagagatatggttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATTTATTACCTAAGAGATATTGGTGATGCTGATAAAATTGTTGAAGCCATCA
                          gacttac  putative branch site (score: 2)
                  aaacaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtatttttccatattcattttcgcaagttttgtagctttagttaattttgtgctaaagctttggtattacttgtaatttttgaaatgttgttccacaaaatgctgtagtggtccaaagagttcgaagaagaaacaattgacttactgagagatatggttgggtacagTTCCTTAACCTTGCCGACTTCAAAACTCCTGGAGCTGACGCCAAAGGTATTTATTACCTAAGAGATATTGGTGATGCTGATAAAATTGTTGAAGCCATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC