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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGAGCCGTGACAGGAGTCAACGTGAAATTGGAAGAGAATAAGCTTATTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgttcgctccttaggtattatgtgatgctcccggcagcacgtacaataatttgccactagcaaatttcatctcgaaaatgtaatatctaaatgagtcatatgatggttgagtctgctgatggtagctttatgaagtattggtaacttgtgtgggaagtaattttgatctgtattcacatgttcag

Basic information

species Physcomitrella patens
transcript PP1S78_210V6.1
intron # 3
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|67695361|gb|BJ955594.1|BJ955594
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162208442|gb|FC384197.1|FC384197
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162199764|gb|FC375837.1|FC375837
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|18341071|gb|BJ173104.1|BJ173104
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162167356|gb|FC343059.1|FC343059
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162167355|gb|FC343058.1|FC343058
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162249723|gb|FC428163.1|FC428163
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|208346478|gb|DC917431.1|DC917431
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|18333668|gb|BJ165683.1|BJ165683
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162179662|gb|FC355720.1|FC355720
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|37850040|gb|BJ608048.1|BJ608048
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162185883|gb|FC360983.1|FC360983
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
EST: gi|162185882|gb|FC360982.1|FC360982
EST:     TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAAC                         GTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG
genomic: TTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgtt ... acatgttcagGTGATCCTGTCTTTTGAGGAGCCGGAAGTTGGCTTGACTGTGGTGAAACTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGAGCCGTGACAGGAGTCAACGTGAAATTGGAAGAGAATAAGCTTATTGTTCAGAAGTGGAGATTTAACAGTTGGGCTGATGGTCACTATTCGAACgtaagtcgttcgctccttaggtattatgtgatgctcccggcagcacgtacaataatttgccactagcaaatttcatctcgaaaatgtaatatctaaatgagtcatatgatggttgagtctgctgatggtagctttatgaagtattggtaacttgtgtgggaagtaattttgatctgtattcacatgttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT