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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCCTGGAGCCTACTGCAGTGTTTGTCCCATTGAAGGAAATTTTAAGGAATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggctccttcattggcatcttttaaatgtttctagtttgatatgtcgagtggggtgacaaagcactatgatcacggtccttcctttatgagtag...

Basic information

species Physcomitrella patens
transcript PP1S41_177V6.1
intron # 14
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|162249296|gb|FC423979.1|FC423979
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|37825115|gb|BJ583181.1|BJ583181
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|162192524|gb|FC368634.1|FC368634
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|162263738|gb|FC439637.1|FC439637
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|162278733|gb|FC454843.1|FC454843
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|18334344|gb|BJ166361.1|BJ166361
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|208394915|gb|DC924134.1|DC924134
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|162230101|gb|FC406249.1|FC406249
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|162278732|gb|FC454842.1|FC454842
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|162214450|gb|FC391209.1|FC391209
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|37823906|gb|BJ581972.1|BJ581972
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|67692630|gb|BJ952863.1|BJ952863
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
EST: gi|208397350|gb|DC916318.1|DC916318
EST:     ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAA                         ATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT
genomic: ATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 28 (upstream exon), 26 (downstream exon)
Score: 3

GGCCCTGGAGCCTACTGCAGTGTTTGTCCCATTGAAGGAAATTTTAAGGAATGAGGAAAACTTTGCTCTTGCTACCACTGAAATTTTTGGTCCATTTCAAgtgagtaggc ... tactgtgcagATACTGACAGAATACAAACATGAAGACCTTCCGCTGGTTTTTGAGGCTTGTGAACGAATGCATGCACATCTTACTGCTGCGGTTGTTTCTAACGATGTTC




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