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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgccacatctattgtttagagttattgctatacagctagtgctgttataacattgacctattacagGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG

Basic information

species Glycine max
transcript GLYMA05G23670.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G46630.2 (Arabidopsis thaliana), 3'ss of exon 5
---------gtagtgccacatctat-tgtttagagttatt--gctatacagctagtgctgttata--acattgacctat-tacagGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG
| | | | | | | | |||| | | | | | | ||||| || ||| |||| | | ||||| || ||||||||||||||||||||||| ||||| ||||| || ||||
gtgagtgttgagtttctttctgtgtgtatgtagatcggctaggttgtgcgg-tagtgatgatattttgcattctctcaaacgcagGTGTTTCTGGATATTGTGGAAAGTGTAAACCTTCTGATGTCCTCTAAAG

upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S54_156V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------------------gtagtgccacatctattgtttagagttattgctatacagctagtgctgttataacattgacctat-----tacagGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG
| | | | || ||| | || | | | || | || | ||| | | | ||| | | |||||||| || ||||||||||||||||| ||||| || |||||| ||||
gtacatatgtttaaaggagaacgtagtttcgcttcttaagaagcattgggattaactctatcttagaaattctgaatttatcggtttaactgaatg----aaagtttgtggtactcaagaatttgttgttggttgtgcagGTCTTTCTCGATATTGTGGAAAGTGTCAATCTCCTCATGTCTCAGAAAG

upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------gtagtgccacat---ctattgtttagagttattgctatacagctagtgct-gttataacattg--acctattacagGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG
| || || ||| ||||| ||| | | | | | | |||| || ||| |||| ||||| |||||||| || |||||||||||||| || |||||||| |||||| || |
gtacacttataatgaaaacagaatgtttgaggtgtacctcatgctttattggttata-ctgtgtaaaaatatgtagtactcaacatattattgttgcctat-gcagGTCTTTCTCGATATTGTGGAAAGCGTTAATCTTCTCATGTCTCAGAAGG

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|151413117|gb|EV282925.1|EV282925
EST:     TGGTGCTGTTGGTTGGCGGAGAGAAAGGGCTTGTGTACAAAAAGAATGAG                         GTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTTATGTCTTCTAAAG
genomic: TGGTGCTGTTGGTTGGCGGAGAGAA-GGGCTTGTGTACAAAAAGAATGAGgtagtgccac ... cctattacagGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttagagttattgctatacagctagtgctgttataacattgacctattacagGTCTTCCTGGATATTGTGGAAAGTGTAAATCTTCTAATGTCTTCAAAAG
                                 ttataacatt  TA-rich tract