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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTACGAGCTCATTGTTTTTTTGTTACTTTGAGGGGCTGGTGTTGTAAAAGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgaggtgatacgttgtttggtattttgagtgatgaattgggttcccgttttttcttttatgggtttttgttttcattcctatcacgatgatgatg...

Basic information

species Physcomitrella patens
transcript PP1S15_44V6.1
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|100399524|gb|BY972762.1|BY972762
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|18345037|gb|BJ177078.1|BJ177078
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|100413395|gb|BY956650.1|BY956650
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|100438389|gb|BY979932.1|BY979932
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|18325301|gb|BJ157297.1|BJ157297
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|18351640|gb|BJ183692.1|BJ183692
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|208369562|gb|DC932544.1|DC932544
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|18328537|gb|BJ160542.1|BJ160542
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|100355095|gb|BY964999.1|BY964999
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
EST: gi|67572777|gb|BJ945601.1|BJ945601
EST:     AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAG                         TTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC
genomic: AGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCAC

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), 34 (downstream exon)
Score: 15

GACTACGAGCTCATTGTTTTTTTGTTACTTTGAGGGGCTGGTGTTGTAAAAGCTGGCCGCCATCGTTGCTGTGTTCAGTTCTATCTCGCCGTTTTTTGAGgtgggcgagg ... gaggctcaagTTGGAGGCTCTCATATGAATTCGACGTTACGTCTGGTGGATGTTTCGGCACCCCTTGGCTGCCGGCAATGTGCCTACTTTCATCGCAACGTCGGTGCTGG




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