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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcctattattttaatgcacatgtttatgcctgtatttgaatgtttatttttatacaaaagaatgctgatcattttctgtctgctctgctttctttttttgtttgttggtgcaactgacatttttacagGAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTGATGGCAATGCTATTGCTGTCACAGTCTGATTTATTACTTCTTCCTAGAA

Basic information

species Glycine max
transcript GLYMA20G35900.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35900.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G73390.2 (Arabidopsis thaliana), 3'ss of exon 5
gtaattcctattattttaatgcacatgtttatgcctgtatttgaatgtttatttttatacaaaagaatgctgatcattttctgtctgctctgctttctttttttgtttgttggtgcaactgacatttttacagGAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTGATGGCAATGCTATTGCTGTCACAGTCTGATTTATTACTTCTTCCTAGAA
           || |  ||      | |   |   |||  |    || |  ||  |  ||   |  ||   ||          | | |  |  |   | |   | | ||        | | |||| |   ||||||||| ||||||| |||| |||||||||| | ||||||||||||||  | ||||||||| ||    |||||||  |  ||||| | |||||||||||| 
-----gtgcggtagtcaaagctgtttatcccttattgtgctgttttgctctttccttcactttaagatttagact--------tttacattagtggttgtgagtatatgacaagattatttacatctac-cagGAAACAGCCATGTCAAATGTTTGGTATGAAATATTGTCGGTTTTGCATCTAATGGCAATGTTACAAATGTCACAAGCCAATTTACTGCTTCTTCCTAGAG

upper sequence: GLYMA20G35900.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0039g00390.t01 (Vitis vinifera), 3'ss of exon 6
gtaattcctattattttaatgcacatgtttatgcctgt---atttgaatgtttatttttatacaaaagaatgctgatcattttctgtctgctctgctttctttttttgtttgttggtgca-actgacatttttacagGAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTGATGGCAATGCTATTGCTGTCACAGTCTGATTTATTACTTCTTCCTAGAA
||    | || ||| |   |  ||   ||  | | |||   |||| | | ||| ||||| |   |      | |  |    || ||   |    | |||              || | || | ||  || ||| ||||||||||||||||||||||||||||| || || ||||||||||||||||||||||||||||||||| | |||||| |  | ||| | ||||||||  |||
gtgggac-taatatatgggtttactgtttgttacttgtcaaattttattttttgtttttgtttgaggtctcgttctttcccttatgggagtgacggttt--------------tgatacagattgttatcttttcagGAAACAACCATGTCTAATGCTTGGTACGAGGTTTTGTCGGTTTTGCACTTGATGGCAATGCTATTGTTATCACAGGCAAACTTACTGCTTCTTCCACGAA
















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|192325278|gb|FK019149.1|FK019149
EST:     TACAATACAAAGTACAATTTGCTTGGGTGAATCAAGAGGATGAAGCAGAG                         GAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTG
genomic: TACAATACAAAGTACAATTTGCTTGGGTGAATCAAGAGGATGAAGCAGAGgtaattccta ... atttttacagGAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgtctgctctgctttctttttttgtttgttggtgcaactgacatttttacagGAAACAACCATGTCTAATGCTTGGTATGAAGTGTTGTCGGTTTTGCACTTGATGGCAATGCTATTGCTGTCACAGTCTGATTTATTACTTCTTCCTAGAA
                                      aactgac  putative branch site (score: 2)
                                            cattttt  CT-rich tract
               tttctttttttgttt  TA-rich tract