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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCACGTAAGGCAGATAAACTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctcacatctgcaactgaatttagttcttaaacgttaacgatgatttcactctgagctggttcatgcaaagctttgaagtgtttgatgattattattcgattcttgtag

Basic information

species Physcomitrella patens
transcript PP1S414_24V6.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S414_24V6.1 (Physcomitrella patens), 5'ss of exon 20
lower sequence: GLYMA11G27410.1 (Glycine max), 5'ss of exon 27
AGCACGTAAGGCAGATAAACTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctcacatctgcaactgaatttagttcttaaacgttaacgatgatttcactctgagctggttcatgcaaagctttgaagtgtttgatgattattattcgattcttgtag
| |  | |||   || || ||  | ||||| |||||||||||||| || |||||||| ||||| ||||||||||  | |  |    ||    ||||||||| |   | | |||       |  || |||  |   | |  |||   || | | |  |  |                       
ATCGTGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatattttatcttataaatattatttagttccttg-cttcaac-------ttgct-tgatataaataactcaagttttagtaataatacag----------------------

upper sequence: PP1S414_24V6.1 (Physcomitrella patens), 5'ss of exon 20
lower sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 21
AGCACGTAAGGCAGATAAACTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctcacatctgcaactgaatttagttcttaaacgttaacgatgatttcactctgagctggttcatgcaaagctttgaagtgtttgatgattattattcgattcttgtag
| | || |||   || || ||  | ||||| |||||||||||||| || |||||||| ||||| ||||||||||  | |  |    ||    ||||||||| |   | | |||       |  ||  ||  |   | |  |||   || | | |  |  |                       
ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAGgtatattttatcttataaatattatttagttccttg-cttcaac-------ttgcta-gatataaataactcaagttttagtaataatacag----------------------

upper sequence: PP1S414_24V6.1 (Physcomitrella patens), 5'ss of exon 20
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 5'ss of exon 20
AGCACGTAAGGCAGATAAACTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctcacatctgcaactgaatttagttcttaaacgttaacgatgatttcactctgagctggttcatgcaaagctttgaagtgtttgatgattattattcgattcttgtag
  ||||||||   || || ||  | ||||| ||||||||||||||||||||| |||| || |||||||||| | |           |     | | | || | |||  ||||  ||  ||||   ||||  |  ||     |||  ||     |   ||  |                     
GTCACGTAAGAAGGACAAGCTGAGGTATCGGTATCCTCGTGGTGAATCTTACCTGGATGTTATCCAAAGgtttgcaatctgctgttacaaagaatgatttgtcaaaacttaaatattttttccaactgattta-ttagaataaactttctgcattaatgcag---------------------

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|162183439|gb|FC359562.1|FC359562
EST:     CTCCGTTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAG                         GGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
genomic: CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctca ... attcttgtagGGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
EST: gi|162258015|gb|FC434109.1|FC434109
EST:     CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAG                         GGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
genomic: CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctca ... attcttgtagGGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
EST: gi|37843086|gb|BJ601094.1|BJ601094
EST:     CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAG                         GGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
genomic: CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctca ... attcttgtagGGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
EST: gi|37840559|gb|BJ598567.1|BJ598567
EST:     CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAG                         GGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
genomic: CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctca ... attcttgtagGGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
EST: gi|67698398|gb|BJ958631.1|BJ958631
EST:     CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAG                         GGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
genomic: CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctca ... attcttgtagGGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
EST: gi|208397007|gb|DC924685.1|DC924685
EST:     CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAG                         GGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT
genomic: CTCCGCTATCGCTATCCTCGTGGTGAATCTTACTTGGACGTCATCCAAAGgtatacctca ... attcttgtagGGTGGAGCCTGTCATTGTAGAGCTTGAGAGGCAGCGCTCACCAGTGGTGGT