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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGGTTTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctctccacttccttgctagtgtgggtgcattttgggaactgcatattgcacatgactgtttttgttaacaaccttagttattgtag

Basic information

species Glycine max
transcript GLYMA20G24790.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGGTTTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgt-ttgtgctctccacttccttgctagtgtgggtg-------cattttgggaactgcatattgcacatgactgtttttgttaacaaccttagttattgtag-------------------
||| || || || ||||| || || ||||||||||| || || ||| | || ||||| || || |||||||||||||||||||| |||||||| || ||||| ||    ||||    |   |  || || |  ||        ||   |     |   ||| | |  ||| | ||||| ||       ||  || || |                     
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag

upper sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 9
lower sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 9
TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGGTTTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctctccacttccttgctagtgtgggtgcattttgggaactgcatattgcacatgactgtttttgttaacaaccttagttattgtag-
 || || || || ||||| ||||| ||||| |||||||| || ||  | || |||||||| || |||||||||||||||||||| |||||||| || |||||   |    | | || ||||  | |  |   | ||  |    || |   |  |    |   ||     | || | |   |||   |||||   
GGCTATAATCGAGTATATTCCCTTGTTGGCCAGTCAATTAGGTGTAGGCTTCTTTGATGAGAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtccct--cattctctaccttcattgaatca-tccagataaataaatttgtcgtctctactgcttgaaattttgaaataattataaattgtcag

upper sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 5'ss of exon 8
TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGGTTTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgct-ctccacttccttgc---tagtgtgggtgcattttgggaactgcatattgcacatgactgttt---ttgttaacaaccttagttattgtag
|||||| ||||| ||||| || || ||||||||||| |||||  | | ||||||||||||  | |||||||||||||||||||||||| |||||||||||||||||| | |||    |  |      |  | |||    || |   |   |   | ||  |    |||  ||   |  || ||||   ||  | || |  
TGCAATAATAGAGTATATTCCTTTGTTGGCAAGTCAGTTGGGTATAAAGTTTTTTGATGATGAGCTTGGTGCTCTTTGCATGCAGTGGCTACAGGATAAGgtttgtgtttctctgtcttgtcaagcatcatttggaaatatataatgctttcttttttttattctactaattcaatcctttacaattctatatttttttt

upper sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S197_114V6.1 (Physcomitrella patens), 5'ss of exon 8
TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGGTTTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctctccacttccttgctagtgtgggtgcattttgggaactgcatattg---cacatgactgtttttgttaacaaccttagttat-tgtag-------------------------------------------------------
||| || || || || || || |||||||| || ||||| || ||    |||||||| |||||||| |||||||| |||||||||||| |  | ||| |||||  |    |||  |       || ||||| ||  || |    ||    |  ||    | ||  |     ||||   | | ||||   |  ||||                                                        
TGCCATAATTGAGTACATTCCTTTATTGGCCAGCCAATTAGGTGTCGACTTTTTTGACGACAAACTAGGTGCTCTATGCATGCAGTGGCTTGAAGATCAGgttcttatattcccatcaagcaata-tgtggatgatttctaatcacaagttgctgacttatatcgccaaagttgtcctcgagcttacacacctgtaccttaaggtttattcatatatttcttttaatcgtttttttttttttttttgaacag

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|192298924|gb|FG987669.1|FG987669
EST:     TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAG                         GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
genomic: TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctc ... gttattgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
EST: gi|9205515|gb|BE331739.1|BE331739
EST:     TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAG                         GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
genomic: TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctc ... gttattgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
EST: gi|6914739|gb|AW396269.1|AW396269
EST:     TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAG                         GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTTGAAACGCCTTGCTGA
genomic: TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctc ... gttattgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAAC-TTGAAACGCCTTGCTGA
EST: gi|254327333|gb|GR836942.1|GR836942
EST:     TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAG                         GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
genomic: TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctc ... gttattgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
EST: gi|308098474|gb|HO760215.1|HO760215
EST:     TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAG                         GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
genomic: TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctc ... gttattgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
EST: gi|308098470|gb|HO760211.1|HO760211
EST:     TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAG                         GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA
genomic: TTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctc ... gttattgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAA