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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcaacaatatgtcattaggttaattcaaaagagaagagaatgatagtgaatgagttctcgagcgtgaccctgacagtaagaaatttatcacggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCTGCTTTTCAAGAGACTACGATCTCTCCTGCAAATTTCATCCTCCCATTAT

Basic information

species Physcomitrella patens
transcript PP1S219_94V6.4
intron # 2
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|162250292|gb|FC425946.1|FC425946
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162166620|gb|FC343512.1|FC343512
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|100384135|gb|BY950521.1|BY950521
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162190655|gb|FC367541.1|FC367541
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162154906|gb|FC331948.1|FC331948
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162186428|gb|FC362984.1|FC362984
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162166262|gb|FC342855.1|FC342855
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162150373|gb|FC326645.1|FC326645
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162157382|gb|FC333484.1|FC333484
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|208394292|gb|DC904112.1|DC904112
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162177008|gb|FC353685.1|FC353685
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
EST: gi|162270868|gb|FC446897.1|FC446897
EST:     TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTG                         GTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT
genomic: TTCCTGCCAAGCCCAGTGCACCTGAGGGCACACCCGCAATTTCTCCGTTGgtacgcgtct ... acggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgaatgagttctcgagcgtgaccctgacagtaagaaatttatcacggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCTGCTTTTCAAGAGACTACGATCTCTCCTGCAAATTTCATCCTCCCATTAT
                       ccctgac  putative branch site (score: 3)
                              agtaagaaatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggcaacaatatgtcattaggttaattcaaaagagaagagaatgatagtgaatgagttctcgagcgtgaccctgacagtaagaaatttatcacggctgcagGTAATGCCCGCTAGGCCACGAAGAAACCGCAGATCTCCAGCTCTCCGCGCTGCTTTTCAAGAGACTACGATCTCTCCTGCAAATTTCATCCTCCCATTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA