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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatcagtttgctttgctgtttgtgccaaagtgcatttttttttctcagcattgtaatttaattggttgtatattttatttcagGCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTCCGTGCACTCCTTGATGTTGGTCTTGTTAGGACTACAACAGGAAATCGCG

Basic information

species Glycine max
transcript GLYMA13G35580.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G35580.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G815894_T03 (Zea mays), 3'ss of exon 5
gtatttatcagtttgctttgctgtttgtgccaaagtgcatttttttttctcagcattgtaatttaattggttgtatattttatttcagGCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTCCGTGCACTCCTTGATGTTGGTCTTGTTAGGACTACAACAGGAAATCGCG
     ||  | ||||  |   | |   |   |   |    |  | |  |   |  | |  |||||  | |||   | |  |   |||||| ||||| ||||| |  || || || || || ||    |||||||| |||||||| ||| | |||||||| ||| ||||||||||||| || || || |
----gtaa-aatttggctaaatttcgatcttattttttgctgatgtcacattggttgggcatttatattgtttcttttcgttcatcagGCCACTGGTGAGGACTTCTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATTAGGACTACAACTGGGAACCGTG

upper sequence: GLYMA13G35580.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G163081_T04 (Zea mays), 3'ss of exon 5
gtatttatcagtttgctttgctgtttgtgccaaagtgcatttttttttctcagcattgtaatttaattggttgtatattttatttcagGCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTCCGTGCACTCCTTGATGTTGGTCTTGTTAGGACTACAACAGGAAATCGCG
|||    |  |     | |    | | |     | |   |  | ||   |  |  | ||| ||     |||| | | | ||   |||||| ||||| ||||| |  || || || || || ||    |||||||| |||||||| ||| | |||||||| ||| | |||||||||||||| || || |
gtaaaatttggccaaatatataatct-tattttaatatctgatgttgcattggtttggtatttctgacggttctttttgtt-catcagGCCACTGGTGAGGACTTCTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATCAGGACTACAACAGGGAACCGTG

upper sequence: GLYMA13G35580.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 3'ss of exon 5
---------------------gtatttatcagtttgctttgctgtttgtgccaaagtgcatttttttttctcagcattgtaatttaattggttgtatattttat--------------ttcagGCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTCCGTGCACTCCTTGATGTTGGTCTTGTTAGGACTACAACAGGAAATCGCG
                     |  ||  |    || | | | |  |||  |  |||      || || | | |  || ||| |||   || |    ||| | ||               | |||| ||||| |||||||| || || |||||  | || |||||||||||||||||||| || ||||||||||| ||||| || || ||||| || || || |
gtacaattgttagatatctgtgctttccttttctttcatggtttcttggtctcaaggttggcttgttctgtaaagat-gtagttttgatgatcacttatctgatgcgtacttgtacttcttagGCAACTGGTGAGGATTACTCTGTTGAACCCACAGATAGCAGGAGGCCATTCCGTGCCCTTCTTGATGTTGGGCTTGTGAGAACAACAACTGGCAACCGTG

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|6072732|gb|AW102119.1|AW102119
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatca ... tttatttcagGCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgcatttttttttctcagcattgtaatttaattggttgtatattttatttcagGCTACTGGAGAGGATTATTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTCCGTGCACTCCTTGATGTTGGTCTTGTTAGGACTACAACAGGAAATCGCG
                           atttaat  putative branch site (score: 4)
                                            ttttatttc  putative PPT
                     attgtaatttaattgg  TA-rich tract