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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattagagctgtgaccagctcttgcctctcactatgttcaacatcatttccacgtttgtttactccaggttaatgaccatgtgccaaaatcttctctagccttgcaaagctttactgattacttggggtagtagctcattttgcgctacttatatgtgacagtgaactgattagtactttcattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTTCCTAATCAACCTAAACTCGAGGAGTGGGCTAAAAGCAATGGTGTTGAAG

Basic information

species Physcomitrella patens
transcript PP1S218_19V6.1
intron # 17
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|162209089|gb|FC385113.1|FC385113
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|37845863|gb|BJ603871.1|BJ603871
EST:     CTGTCGAGACCCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|7647930|gb|AW738913.1|AW738913
EST:     GTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: GTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162162560|gb|FC338654.1|FC338654
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|18335322|gb|BJ167340.1|BJ167340
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162150967|gb|FC327863.1|FC327863
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|18341336|gb|BJ173371.1|BJ173371
EST:     GAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: GAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162167279|gb|FC342844.1|FC342844
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162167701|gb|FC344015.1|FC344015
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|37832751|gb|BJ590763.1|BJ590763
EST:     CTGTCGAGAACTTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162199025|gb|FC372376.1|FC372376
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162183786|gb|FC360703.1|FC360703
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|37822902|gb|BJ580968.1|BJ580968
EST:     CTGTCGAGANCCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|37832894|gb|BJ590906.1|BJ590906
EST:     CTGTCGAGACCCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162185787|gb|FC362343.1|FC362343
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162199026|gb|FC372377.1|FC372377
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162171310|gb|FC347235.1|FC347235
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162235484|gb|FC411307.1|FC411307
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|37825298|gb|BJ583364.1|BJ583364
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162209090|gb|FC385114.1|FC385114
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162212203|gb|FC388313.1|FC388313
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162177506|gb|FC353767.1|FC353767
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|7583607|gb|AW699516.1|AW699516
EST:     GGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: GGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162170150|gb|FC347062.1|FC347062
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162213631|gb|FC389711.1|FC389711
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|37851878|gb|BJ609886.1|BJ609886
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162213632|gb|FC389712.1|FC389712
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
EST: gi|162199212|gb|FC375048.1|FC375048
EST:     CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAG                         ATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT
genomic: CTGTCGAGAACCTTGAGAGTATTTATGGTCAATGTGAAGCTATCGATCAGgtattagagc ... cattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattttgcgctacttatatgtgacagtgaactgattagtactttcattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTTCCTAATCAACCTAAACTCGAGGAGTGGGCTAAAAGCAATGGTGTTGAAG
                             aactgat  putative branch site (score: 3)
                                         ctttcatt  putative PPT
           tacttatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattagagctgtgaccagctcttgcctctcactatgttcaacatcatttccacgtttgtttactccaggttaatgaccatgtgccaaaatcttctctagccttgcaaagctttactgattacttggggtagtagctcattttgcgctacttatatgtgacagtgaactgattagtactttcattgatcagATCTGGGTCTACGGGAACAGTTTCGAGTCCACACTTCTCGCAGTTTGTGTTCCTAATCAACCTAAACTCGAGGAGTGGGCTAAAAGCAATGGTGTTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG