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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgactgaattcctctcgtattgtgatgccatcgtactctgcacagtaacgtcagttgacctcgaacaccaggtcatggagggtattgtgatcggctatatggatgtcttgctgtttttctgacatttagagttgctacatttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGGAATATCGAGCCCTCTTATGGTCTTTG

Basic information

species Physcomitrella patens
transcript PP1S91_57V6.2
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|162163278|gb|FC339396.1|FC339396
EST:     GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATG                         GTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
genomic: GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATGgtatgactga ... tttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
EST: gi|162184265|gb|FC359687.1|FC359687
EST:     GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATG                         GTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
genomic: GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATGgtatgactga ... tttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
EST: gi|162206600|gb|FC382358.1|FC382358
EST:     GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATG                         GTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
genomic: GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATGgtatgactga ... tttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
EST: gi|208350890|gb|DC909937.1|DC909937
EST:     GAGCTGTCTGTTCAAA-TGCGGTTCAATACATTATCAGAATCCTAAAATG                         GTGGTAGGTNGCCTGGTGGANCATGANANCAAGGTGTTGCTTTGCAGGAAG
genomic: GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATGgtatgactga ... tttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGG
EST: gi|208354807|gb|DC934215.1|DC934215
EST:     GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATG                         GTGGTAGGTNGCCTGGTGGANCATGAAAACAAGGTGTTGCTTNGCAGGA
genomic: GAGCTGTCTGTTCAAAATGCGGTTCAATACATTATCAGAATCCTAAAATGgtatgactga ... tttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatatggatgtcttgctgtttttctgacatttagagttgctacatttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGGAATATCGAGCCCTCTTATGGTCTTTG
                      ttctgac  putative branch site (score: 2)
                 tgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgactgaattcctctcgtattgtgatgccatcgtactctgcacagtaacgtcagttgacctcgaacaccaggtcatggagggtattgtgatcggctatatggatgtcttgctgtttttctgacatttagagttgctacatttgctacagGTGGTAGGTTGCCTGGTGGAGCATGAGAACAAGGTGTTGCTTTGCAGGAGGAATATCGAGCCCTCTTATGGTCTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA