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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGCTTTGCAAGCAGTCCTGGCAGCATGTGCGCCAGGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggccgtgcctttcttcgttctcgcgcgggtttccttacttcgaaatggttaattgactggcctcccctcaccgtttgaaactagaccttgtgg...

Basic information

species Physcomitrella patens
transcript PP1S119_137V6.1
intron # 2
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|67569798|gb|BJ942622.1|BJ942622
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|208397136|gb|DC908150.1|DC908150
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|100439250|gb|BY980169.1|BY980169
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|100384797|gb|BY950787.1|BY950787
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|162183958|gb|FC359328.1|FC359328
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|100445208|gb|BY982837.1|BY982837
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|67719527|gb|BJ969786.1|BJ969786
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|162161202|gb|FC337265.1|FC337265
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|100397823|gb|BY990419.1|BY990419
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|67716276|gb|BJ966536.1|BJ966536
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGA                         TCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGT
EST: gi|18365978|gb|BJ198056.1|BJ198056
EST:     GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTNGCGA                         TCTAACAGCAGGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAG
genomic: GGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGG-TATGTACAAGAACTTTAAAAAGAAAATTGACAGAG

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: 34 (upstream exon), 27 (downstream exon)
Score: 9

AGGCTTTGCAAGCAGTCCTGGCAGCATGTGCGCCAGGATTCAAGATTGTCGACCTGTGCGAGAAGGGCGACAGCGTGATTCGCGAgtgagttggc ... ttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGTTGCATTTCCCACTTGCGTATCTGTGAACAACACTGTATGTCACTTCTCT




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