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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acagctattgtgcaggacactgttgtcgcattacggtcagcatcaatttctactgtcgcgacttccgtatattatgctaattgcctcgttgattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTGGGAAGCTCCGATGATGTTGAGGAAATTAAGGCTCTATATGCGGCTGAAT

Basic information

species Physcomitrella patens
transcript PP1S1_300V6.2
intron # 10
splice site 3'
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|67694034|gb|BJ954267.1|BJ954267
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|162278601|gb|FC454999.1|FC454999
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208365212|gb|DC950739.1|DC950739
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGCCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|162193915|gb|FC371728.1|FC371728
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|162171403|gb|FC346678.1|FC346678
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208378504|gb|DC927201.1|DC927201
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208396143|gb|DC924609.1|DC924609
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208348185|gb|DC920976.1|DC920976
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|67698768|gb|BJ959001.1|BJ959001
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|162152140|gb|FC328730.1|FC328730
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|18333622|gb|BJ165637.1|BJ165637
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208394809|gb|DC920152.1|DC920152
EST:     CTTTCTTGGTGGAGCAAGCTGTGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|37834323|gb|BJ592335.1|BJ592335
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208352801|gb|DC917765.1|DC917765
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208385201|gb|DC923581.1|DC923581
EST:     CTTTCTTGGTGGAGCAAGNTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208352520|gb|DC918229.1|DC918229
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|162171402|gb|FC346677.1|FC346677
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208398545|gb|DC916516.1|DC916516
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208358947|gb|DC946376.1|DC946376
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|18338549|gb|BJ170573.1|BJ170573
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|162278600|gb|FC454998.1|FC454998
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|208349119|gb|DC925902.1|DC925902
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
EST: gi|67694190|gb|BJ954423.1|BJ954423
EST:     CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGT                         GCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG
genomic: CTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTG

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: 32 (upstream exon), 35 (downstream exon)
Score: 23

AGTTCTGTACGAGGTTTTCCCCATGTCTTTCTTGGTGGAGCAAGCTGGGGGCCAATCCTTTACTGGCAAGCAGCGTgtaagtgttc ... gattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTGGGAAGCTCCGATGATGTTGAGGAAATTAAGGCTCTATATGCGGCTGAAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctactgtcgcgacttccgtatattatgctaattgcctcgttgattttgtagGCTCTCGAATTGGTCCCAGCACATATCCATGATAGATCACCCATTTTCTTGGGAAGCTCCGATGATGTTGAGGAAATTAAGGCTCTATATGCGGCTGAAT
                      tatattatgctaatt  TA-rich tract