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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcttactacttctttcctccaactgattaacttctttgtagttgtttggatgaagaacgcagctgcaagtttagcggtgtgttttaaccaatattttctaattttgactggtatgtctcgtaacattttgagtatggcagatttgttaaatctgtttgtggtaaaactgactgttgtaagacgtgtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAAATGATCTTGACATTAATGAGCTATTTCGGGA

Basic information

species Physcomitrella patens
transcript PP1S197_115V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S197_115V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA11G34980.1 (Glycine max), 3'ss of exon 2
gtattcttactacttctttcctccaactgattaacttctttgtagttgtttggatgaagaacgcagctgcaagtttagcggtgtgttttaaccaatattttctaattttgactggtatgtctcgtaacattttgagtatggcagatttg-ttaaatctgtttgtggtaaaactgactgttgtaagacgtgtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAAATGATCTTGACATTAATGAGCTATTTCGGGA
                                                                                                          |  || | | |    |  |  | |||   ||||| | | ||   || ||| ||  ||   |  || |||   || |      |   |   ||||||| |||||||| ||||||||||| |||||||| || ||||| || |||||||||||||||||| | |   |||||   ||
---------------------------------------------------------------------------------------------------------gtacgagtaggaaaatttttc-cttttcttgtatgtctgtttcaattgaatatgcctg--atctaattgaacattttttttttttggtttacagCAAAGGAGCATGTTGTGGGGTGGTATAGCACTGGTCCAAAGCTGCGCGAAAATGATCTTGACATTCACGGCTTATTTAATGA

upper sequence: PP1S197_115V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA18G03360.1 (Glycine max), 3'ss of exon 2
gtattcttactacttctttcctccaactgattaacttctttgtagttgtttggatgaagaacgcagctgcaagtttagcggtgtgttttaaccaatattttctaattttgactggtatgtctcgtaacattttgagtatggcagatttgttaaatctgtttgtggtaaaactgactgttgtaagacgtgtttgct--cagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAAATGATCTTGACATTAATGAGCTATTTCGGGA
                                                                                                          | ||| | | |  | |  |  | |||   ||||| |   |||  |  |  | | | || |  || |||   | |       | || | |  ||||||| |||||||| ||||||||||| |||||||| || ||||| || |||||||| ||||||||| |||   |||||   | 
--------------------------------------------------------------------------------------------------------ggtatgagtaggaaattttttc-cttttcttgtatgtctcttttaattgaa-tatctctgatctaattgaacatgggtttttcttttggtttacaGCAAAGGAGCATGTTGTGGGGTGGTATAGCACTGGTCCAAAGCTGCGTGAAAATGACCTTGACATTCATGGCTTATTTAATG-
















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|162212343|gb|FC388071.1|FC388071
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|100442139|gb|BY963032.1|BY963032
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAGCG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGTTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|18346971|gb|BJ179017.1|BJ179017
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGG
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGG
EST: gi|208368978|gb|DC955063.1|DC955063
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|208391154|gb|DC942066.1|DC942066
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|100398742|gb|BY990493.1|BY990493
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|100426796|gb|BY977367.1|BY977367
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|100362914|gb|BY947592.1|BY947592
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CANAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|100387742|gb|BY951742.1|BY951742
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CANAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|100381366|gb|BY950092.1|BY950092
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
EST: gi|208361519|gb|DC942804.1|DC942804
EST:     GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACG                         CAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA
genomic: GGACCACAACTATCATGAGACTATGTTCGACATGTTCAAGAGAATTAACGgtattcttac ... gtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttgttaaatctgtttgtggtaaaactgactgttgtaagacgtgtttgctcagCAAAAGAGCATGTGGTGGGGTGGTACAGCACTGGGCCTAAGCTTCGAGAAAATGATCTTGACATTAATGAGCTATTTCGGGA
                         aactgac  putative branch site (score: 2)
                                              tttgctc  putative PPT
      ttaaatct  TA-rich tract