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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGAGTGGAATGCCAGAACGCAGATCACAATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattacaatttcttgtttgactaggtggtggtcatacacagatctaatggataccgcagtatgtatgtgtatgtgagttgttgcaagaatgagtgca...

Basic information

species Physcomitrella patens
transcript PP1S329_23V6.1
intron # 18
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|67692698|gb|BJ952931.1|BJ952931
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|162232857|gb|FC407809.1|FC407809
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|37827666|gb|BJ585678.1|BJ585678
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|162173461|gb|FC349840.1|FC349840
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|162244026|gb|FC422342.1|FC422342
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|162244027|gb|FC422343.1|FC422343
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CANACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|67569435|gb|BJ942259.1|BJ942259
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|37833090|gb|BJ591102.1|BJ591102
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|18335774|gb|BJ167795.1|BJ167795
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
EST: gi|37834598|gb|BJ592610.1|BJ592610
EST:     AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACG                         CAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT
genomic: AATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTT

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: 35 (upstream exon), 32 (downstream exon)
Score: 3

TATGAGTGGAATGCCAGAACGCAGATCACAATGTGGTTCGATAACACTCTTGACAAACCAAGCCCTCTTCATGATTACGgtaaattaca ... aactttccagCAAACAAAATGTGGAGTGGCTTGACTCGTGACTACTACCTTCCAAGAGCTTCAATCTACATCAAGTACTTGAAGCAATCTCTTCATGAAAACACGTCTTT




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