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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATCACGCAGTTCTTGGCCTTTGAGCAGCAGGCGACGAGATTGGCCTCCGAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgcatcccctggttgcaacttgaatcgtctgtacacatttgttctactttacttgaactttttcactttgaagcgatggaagattgtagccgtgggtttcttgcagagctcgattgggctatgtagcatgcaaggttcattctctctgaaggccttcatggctgtgtgtgaacag

Basic information

species Physcomitrella patens
transcript PP1S47_50V6.1
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|208351815|gb|DC910369.1|DC910369
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|18342947|gb|BJ174983.1|BJ174983
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|100406897|gb|BY973921.1|BY973921
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|18351509|gb|BJ183561.1|BJ183561
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|100412056|gb|BY956393.1|BY956393
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|18346513|gb|BJ178557.1|BJ178557
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|18355480|gb|BJ187539.1|BJ187539
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|162161504|gb|FC338711.1|FC338711
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|208357885|gb|DC902367.1|DC902367
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|100361332|gb|BY965788.1|BY965788
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|100361491|gb|BY984032.1|BY984032
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|100357893|gb|BY946627.1|BY946627
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|100426792|gb|BY977365.1|BY977365
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|18351694|gb|BJ183746.1|BJ183746
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|162273278|gb|FC449558.1|FC449558
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|18350946|gb|BJ182997.1|BJ182997
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
EST: gi|208389245|gb|DC933273.1|DC933273
EST:     GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAG                         AAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA
genomic: GAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCA

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: 29 (upstream exon), 30 (downstream exon)
Score: 16

CAATCACGCAGTTCTTGGCCTTTGAGCAGCAGGCGACGAGATTGGCCTCCGAGGAATCATGGTGAAGGTTGTGAAGGTTTACGAATTTGGGGGACCTGAGgtaggtttgc ... gtgtgaacagAAACTCCAATTCGAGGATGTGGAGCTTGGAAAACCCGGCCCTAAACAAGCAAGGGTAAAGCATGCCGCAGTAGGCTTGAACATGATCGATACGTATTTTA




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