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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCATCGGGTGTGAGAAAGCTCAACCGATTGTGAGCAACTGCCGGGTTAGTGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctcttaatcattactgctctttcctctacctaacagtgggcatcatggttgccaattcaagaccgtcattgctttgtagcagtagaagcgggcat...

Basic information

species Physcomitrella patens
transcript PP1S205_59V6.3
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|162258767|gb|FC434566.1|FC434566
EST:     TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTG                         GGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
genomic: TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
EST: gi|162165615|gb|FC341454.1|FC341454
EST:     TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAACAGGGAAGTTGGTTTTG                         GGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
genomic: TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
EST: gi|100436235|gb|BY979447.1|BY979447
EST:     TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTG                         GGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
genomic: TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
EST: gi|208400638|gb|DC904838.1|DC904838
EST:     TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTG                         GGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
genomic: TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
EST: gi|162168296|gb|FC344610.1|FC344610
EST:     GGGCAGCCGCGGATGGCAACAGGGAAGTTGGTTTTG                         GGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
genomic: GGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
EST: gi|100387062|gb|BY951461.1|BY951461
EST:     TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTG                         GGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC
genomic: TGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGC

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), 35 (downstream exon)
Score: 83

AGCATCGGGTGTGAGAAAGCTCAACCGATTGTGAGCAACTGCCGGGTTAGTGTTACAGGCGTTAGGGCAGCCGCGGATGGCAGCAGGGAAGTTGGTTTTGgtaagctctt ... ttgattttagGGACAACGAAAGGCGTAGCACTGAATGGGAATGGAACAATGGTGACCGAGCGGCCATTCACTGGGGGCGCCATAGATTTCAGGCGTGCTACAGCTCCTCT




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