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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCGATTTACGGACGCTTTTCGGGTTTGCCGTTCTGAACGGAATTTCTATTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaattttgtcagctatacagaaagctgagcttgcgtgttgcgtgattatagatcaagagacgttttggcttattaccatttgatcccccttctgttataagggttctagctctgttgcatgaacaagaaccgaatctgagagagtacgagtaaccaaacaattttcttgcag

Basic information

species Physcomitrella patens
transcript PP1S311_78V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S311_78V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G081848_T05 (Zea mays), 5'ss of exon 3
CTTCGATTTACGGACGCTTTTCGGGTTTGCCGTTCTGAACGGAATTTCTATTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaattttgtcagctatacagaaagctgagcttgcgtgt-tgcgtgattatagatcaagagacgttttggcttattaccatttgatcccccttctgttataagggttctagctctgttgcatgaacaagaaccgaatctgagagagtacgagtaaccaaacaattttcttgcag
 ||||||  | ||||  |  | || || |  || || || || || |||||||| ||||||||| ||||  |||||||||| ||||||||||| |||||||||| | ||    |   |  |  |      |    |||  |   | |     ||  | | |   |  | | | ||  | |    | | || |  |  |  | | | |                                                                       
TTTCGATGCAAGGACCGTCATGGGATTCGGAGTGCTCAATGGCATATCTATTGGACTTCTAAACTTGAGTTTGGGTTTCAATTCTGTTGGTTTCTATCAGgtac-acatccctttttccctctaa----ttttatttgtattcatccaaacataaggtttattgggtgatctagc--actgatttcttattcggcgccaataacatg-----------------------------------------------------------------------

upper sequence: PP1S311_78V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G116053_T01 (Zea mays), 5'ss of exon 3
CTTCGATTTACGGACGCTTTTCGGGTTTGCCGTTCTGAACGGAATTTCTATTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaattttgtcagctatacagaaagctgagcttgcgtgttgcgtgattatagatcaagagacgttttggcttatt-accatttgatcccccttctgttataagggttctagctctgttgcatgaacaagaaccgaatctgagagagtacgagtaaccaaacaattttcttgcag
 ||||||  | ||||  |  | || || |  || || || || || |||||||| ||||| ||| |||| ||||||||||| ||||||||||| |||||||||   |    | |    | |  |   |||  | |||  |  ||    | |    || |  |   ||  ||  ||||||   || |     |      |||||| |                                                                        
TTTCGATGCAAGGACTGTCATGGGATTCGGAGTGCTCAATGGCATATCTATTGGACTTCTTAACTTGAGTCTGGGTTTCAATTCTGTTGGTTTCTATCAGgtatgcatcccttttctgtttgtattcagccaaacttaaggtttattgggt----gacctggcaccgactt--cttattcggcactcatagcatgacatgttatca------------------------------------------------------------------------

upper sequence: PP1S311_78V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 5'ss of exon 4
CTTCGATTTACGGACGCTTTTCGGGTTTGCCGTTCTGAACGGAATTTCTATTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaattttgtcagctatacagaaagctgagcttgcgtgttgcgtgattatagatcaagagacgttttggcttattaccatttgatcccccttctgttataagggttctagctctgttgcatgaacaagaaccgaatctgagagagtacgagtaaccaaacaattttcttgcag
 || |||  |    |  || | || |||| | |||| || ||||| || ||||| || || || |||||||| |||||||| ||||||||||| |||||||||  |||||     |  | | | |||   |   | | | | || | || | |           || ||||||    || |||||| |       ||        || ||||     | |   ||  |        | ||   ||                                
ATTTGATGCAAAAGCTGTTATGGGTTTTGGCATTCTAAATGGAATCTCGATTGGACTCCTGAATCTGAGCCTTGGTTTCAATTCTGTTGGTTTCTATCAGgta--aaatt-----aattcttctgaatattc--cctac-tattacatgttca-----------ac-ttttggtcctttgccatttcagtgtttctcaagagagtggtttctgaacttatgttat--attgtttgtgtattccag--------------------------------

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|100414200|gb|BY992660.1|BY992660
EST:     TTGGCCTTCTAAACCTGAGCCTGGGTTTCA-CTCTGTTGGTTTTTATCAG                         ATGACCAAACTCGNCA-TCATTCCATGCACAGTGTTGCTGGAAACAGTGTT
genomic: TTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaatt ... tttcttgcagATGACCAAACTCG-CAATCATTCCATGCACAGTGTTGCTGGAAACAGTGTT
EST: gi|100386538|gb|BY951334.1|BY951334
EST:     TTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAG                         ATGACCAAACTCGCAATCATTCCATGCACAGTGTTGCTGGAAACAGTGTTC
genomic: TTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaatt ... tttcttgcagATGACCAAACTCGCAATCATTCCATGCACAGTGTTGCTGGAAACAGTGTTC
EST: gi|208363875|gb|DC943332.1|DC943332
EST:     TTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAG                         ATGACCAAACTCGCAATCATTCCATGCACAGTGTTGCTGGAAACAGTGTTC
genomic: TTGGCCTTCTAAACCTGAGCCTGGGTTTCAACTCTGTTGGTTTTTATCAGgtactaaatt ... tttcttgcagATGACCAAACTCGCAATCATTCCATGCACAGTGTTGCTGGAAACAGTGTTC