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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTTTTGCTTCGCAATCCTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatttcctctcccgattccccgagaacccaaaaattatgctccctcccccaccttgcagatcatcattttgtttccttcgatacccacctcttc...

Basic information

species Physcomitrella patens
transcript PP1S38_376V6.1
intron # 1
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|37832499|gb|BJ590511.1|BJ590511
EST:     GGCGCTGCTCCCCCTTTCCCCCNTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: GGCGCTGCTCCCCCTTTCCCCC-TCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162203216|gb|FC379313.1|FC379313
EST:     GCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: GCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|37849607|gb|BJ607615.1|BJ607615
EST:     TGACCAGGCGCTGCTCCCCCTTTCCCCNTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: TGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18370115|gb|BJ201717.1|BJ201717
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|37841187|gb|BJ599195.1|BJ599195
EST:     CCGTGACCAGGCGCTGCTCCCCCTTTCCCCNTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162202837|gb|FC379819.1|FC379819
EST:     CCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162237079|gb|FC413238.1|FC413238
EST:     TTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: TTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18368504|gb|BJ200589.1|BJ200589
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|37850940|gb|BJ608948.1|BJ608948
EST:     TGACCAGGCGCTGCTCCCCCTTTCCCCNTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: TGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162251657|gb|FC426063.1|FC426063
EST:     GGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: GGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162276406|gb|FC452656.1|FC452656
EST:     CCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162237080|gb|FC413239.1|FC413239
EST:     CTCCCCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162213580|gb|FC389452.1|FC389452
EST:     CTCCCCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|37848210|gb|BJ606218.1|BJ606218
EST:     GTGACCAGGCGCTGCTCCCCNTTTCCCCTTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: GTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18344500|gb|BJ176540.1|BJ176540
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162202838|gb|FC379820.1|FC379820
EST:     CCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162177227|gb|FC352656.1|FC352656
EST:     CTCCCCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18364022|gb|BJ196095.1|BJ196095
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18360355|gb|BJ192417.1|BJ192417
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162196966|gb|FC373332.1|FC373332
EST:     CTCCCCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18371592|gb|BJ203194.1|BJ203194
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162269116|gb|FC444984.1|FC444984
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|18355556|gb|BJ187615.1|BJ187615
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
EST: gi|162262697|gb|FC438479.1|FC438479
EST:     CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATG                         GTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG
genomic: CTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatt ... gttctatcagGTTAAGTATGCGAGGGATCCGGATAATTCGACCAAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTTTTGCTTCGCAATCCTCCTCGCCGTGACCAGGCGCTGCTCCCCCTTTCCCCCTCGTCAACAATGgtgcgtaatttcctctcccgattccccgagaacccaaaaattatgctccctcccccaccttgcagatcatcattttgtttccttcgatacccacctcttc

- - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - -  GCTGCT