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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttatctgccttgtttactttatttaatcgatatatttatctttgcttatttatttccttgactttgtttaatgtttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC

Basic information

species Glycine max
transcript GLYMA19G41770.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtttgttatctgccttgtttactttatttaatcgatatatttatctttgcttatttatttccttgactttgtttaatgtttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC
|| ||||   |    | |  || |||| |  | | | |   |   |     |   | | || |   ||||||  |||  || |||||||| || ||||| |||||| | |||||||| |||||||| ||||| ||||| || ||||| || ||||||||||| ||||| || || ||||| ||||| |
gtatgttgatt-taatataaaccttatatcct-gttgttgctggatgaaaatgaatttctcatcagctttgt--aattctt-ttgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC

upper sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
------gtttgttatctgccttgtttactttatttaatcgatatatttatctttgctt-------atttatttccttgactttgtttaatgtttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC
      | ||   |  ||| |     | ||| |   | | ||       |  | |||        ||  |||||        | | ||||  || ||||||||||| || || |||||| | |||||||| |||||||| ||||| ||||| || ||||  || ||||| ||||| ||||| || || ||||| ||||| |
tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcatgagctttataattctt-ttgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC

upper sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
gtttgttat--ctgccttgtttactttatttaatcgatatatttatctttgcttatttatttccttgactttgtttaatgtttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC
|| ||||||     |||   | |     |||||   ||  || |   | || |  |||    |  |    || ||| |    |  |||||||||| ||||| |||||| | ||||| || |||||||| || ||||| ||||| |||||||||||||||||||| ||||||||  | ||||| || || |
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC

upper sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S230_50V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------gtttgttatctgccttgttta--ctttatt---taatcga-tatatt-tatctttgcttatttatttccttgactttgtttaatgt-ttgt-tgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC
                    |  | |   |  ||||||  || ||||    |||||| || ||        ||       |   |    |  |   |   ||| | |  || |||| || || || ||||| ||||||||||| ||||| |||||||||||  |||||  |||||| |||||||| || ||||| |||||||| ||  ||||||
gtgctcactcggattttccctactgtgaactgtgtttaatctctattgtacaatcgagtacatcacgatcctgtgggggcagaacgagtatctcactgtgtgtatcgcatgcagTTCGAAGCTGCCTGGGCGTTGACAAATATTGCTTCCGGAACTTCTGATCACACCCGGGTGGTTATTGATCACGGAGCTGTGCCAATTTTCGTTCAGCTCC

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|254325496|gb|GR838377.1|GR838377
EST:     TTCCACGCTTTGTTGAGTTCTTGATGAGGGAAGATTTTCCACAGCTGCAG                         TTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAAC
genomic: TTCCACGCTTTGTTGAGTTCTTGATGAGGGAAGATTTTCCACAGCTGCAGgtttgttatc ... tttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatatttatctttgcttatttatttccttgactttgtttaatgtttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC
                                     gtttaat  putative branch site (score: 4)
     atttatctttgcttat  TA-rich tract