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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatactcgagctcatgttttcgctgtctactatgattaggcggtttcatttatgttgctaacttatatgttcacagtctacagaaattttatttatgtttgcagagacaacacgtggattcttgtacatgtcgatttcttattatgtcgtttatggatctaaactgatcctaatttttgtattgtacgtagTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAATGTTGTCAAGCATGTGTATCCTGGTCACGTTGTCTTACAGTTCAACTGCA

Basic information

species Physcomitrella patens
transcript PP1S15_298V6.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S15_298V6.2 (Physcomitrella patens), 3'ss of exon 12
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 14
gtaatactcgagctcatgttttcgctgtctactatgattaggcggtttcatttatgttgctaacttatatgttcacagtctacagaaattttatttatgtttgcagagacaacacgtggattcttgtacatgtcgatttcttattatgtcgtttatggatctaaactgatcctaatttttgtattgtacgt-agTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAATGTTGTCAAGCATGTGTATCCTGGTCACGTTGTCTTACAGTTCAACTGCA
                                                                                        |    |   | ||| || | ||        | ||| || |||||    |   ||   ||||   | ||   ||  || | || ||  |||| || || |   | |||| || || ||||| | ||| ||||||| ||||||||| |||||||| ||||||||||||||  | | |  | | || ||||| || |||| ||||||||
---------------------------------------------------------------------------------------gtcccctgctttttttcacatac--------gcttcatgcacatgg-actaatttgaaatgttactaat---tcagaagttattctt-ttttcgttttatttatcagTCCTCAGCACCTGTAGAGCTGACAGAAGCAGAAACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
















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|162174130|gb|FC350333.1|FC350333
EST:     AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAG                         TCATCTGCTCCTGTGGCGCTNACAGAAGAAGAAACAGAGTATGCTGTGAAT
genomic: AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAGgtaatactcg ... ttgtacgtagTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAAT
EST: gi|162150207|gb|FC326292.1|FC326292
EST:     AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAG                         TCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAAT
genomic: AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAGgtaatactcg ... ttgtacgtagTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAAT
EST: gi|161984098|gb|EE296401.1|EE296401
EST:     AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAG                         TCATCTGCTCCTGTGGCACTAACAGAAGAAGAAACAGAGTATGCTGTGAAT
genomic: AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAGgtaatactcg ... ttgtacgtagTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAAT
EST: gi|162270704|gb|FC446317.1|FC446317
EST:     AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAG                         TCATCTGCTCCTGTGGCGCTNACAGAAGAAGAAACAGAGTATGCTGTGAAT
genomic: AACTACTCAATTCAATCCCTATGTTTGCAGGTTTTGGAAAACTCTTTAAGgtaatactcg ... ttgtacgtagTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttattatgtcgtttatggatctaaactgatcctaatttttgtattgtacgtagTCATCTGCTCCTGTGGCGCTAACAGAAGAAGAAACAGAGTATGCTGTGAATGTTGTCAAGCATGTGTATCCTGGTCACGTTGTCTTACAGTTCAACTGCA
                               tcctaat  putative branch site (score: 2)
                                  taatttttgtattgta  TA-rich tract