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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctgtacttggaggttattttatcctcctgtttggtctctgtccctgttctaattgctcccccccccccccccccccccatcaacaaatctatgatgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTACCACCTGATGGT

Basic information

species Glycine max
transcript GLYMA05G23670.1
intron # 7
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 7
lower sequence: AT5G46630.1 (Arabidopsis thaliana), 3'ss of exon 7
gctgtacttggaggttattttatcctcctgtttggtctctgtccctgttctaattgctcccccccccccccccccccccatcaacaaatctatgatgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTACCACCTGATGGT
                            |   | ||   |          | | |   | |   |    |      |  |   ||     | |  |||||||||||||  || ||||||||||||||||| || || || ||||| ||  |||| || |||||||| |||||||| ||||||||||||||||| ||||| 
-------------------------gtatacgttgttaatacattgaacatcagtagccactgacttttctttgtgctaactgactctcgttttgtgcagTGGTAAAACCATTGAGCTTGATGATGTCACATTTCACCAGTGTGTGAACCTGACCAGATTCAACTCCGAGAAGACTGTTAGTTTTGTACCACCGGATGGA

upper sequence: GLYMA05G23670.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------------------------------------------------------------------gctgtacttggaggttattttatcctc---ctgtttggtctctgtccctgttctaattgctcccccccccccccccccccccatcaacaaatctatgatg-cagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTACCACCTGATGGT
                                                                              | || ||      | |||||  |||   || ||    ||  | |    ||    |||            | |    | |     ||   ||| | ||| |||||| ||||  || |||||||||||||| || ||||| |||||||| ||| | ||||| ||||   | ||||||||||| |||||||| ||||| ||||| 
gttgaatgcgcatccacactcttgtgatggcttcgtttaacaatgttgccctcaagtgttttttatttttatttttattttatttactttattttttactctcattctcttgcagcttcgacatatttgggtttgaaaagtgttttacactgtgctcttgtgactcctctttcatgacagTGGGAAAACAATTGAGCTTGATGATGTTACATTCCACCAATGTGTCAATCTCACAAGATTCACTGCTGAGAAGACAGTCAGTTTTGTTCCACCCGATGGA
















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|51335623|gb|CO979489.1|CO979489
EST:     GAAGCACAACTTAAATCCCGTCCTACTAAAAG                         TGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTT
genomic: GAAGCACAACTTAAATCCCGTCCTACTAAAAGgtagccttct ... tatgatgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTT
EST: gi|58020847|gb|CX707589.1|CX707589
EST:     AGATTGGTCTTGAGAAAGAAGCACAACTT-AATCCCCGTCTTACTAAAAG                         TGGTAAAAGTATCGAGC-TGNATGATGTCACTTTCCATCAATGTGTAAATT
genomic: AGATTGGTCTTGAGAAAGAAGCACAACTTAAAT-CCCGTCCTACTAAAAGgtagccttct ... tatgatgcagTGGTAAAAGTATCGAGCTTG-ATGATGTCACTTTCCATCAATGTGTAAATT
EST: gi|16349156|gb|BI974751.1|BI974751
EST:     AAGATTGGTCTTGAGAAAGAAGCACAACTTAAATCCCGTCCTACTAAAAG                         TGTTATAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTT
genomic: AAGATTGGTCTTGAGAAAGAAGCACAACTTAAATCCCGTCCTACTAAAAGgtagccttct ... tatgatgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttctaattgctcccccccccccccccccccccatcaacaaatctatgatgcagTGGTAAAAGTATCGAGCTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTACCACCTGATGGT
  ttctaat  putative branch site (score: 2)
                                        aaatctat  TA-rich tract