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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAACGAGTCATCGGAACTCTCCTCGGATCTATCTTACCTGACGGAACCGTCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaattttgatctctaaatttctcctctctctcgattctctatcgttggagatcctagatctttcgtagctgaagatttgcttgttaggatgtgaatgtttataggagtagtgttagcttcataccccaaggttgtgacttgtgataagttttgagggttatggtttgatatggatgcag

Basic information

species Arabidopsis thaliana
transcript AT2G39990.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G39990.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G42210.1 (Glycine max), 5'ss of exon 1
TGAACGAGTCATCGGAACTCTCCTCGGATCTATCTTACCTGACGGAACCGTCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaattttgatct--ctaaatttctcctctctctcgattctc-tatcgttggagatcctagatctttcgtagctgaagatttgcttgttaggatg-tgaatgtttataggagtagtgttagcttcataccccaaggttgtgacttgtgataagttttgagggttatggtttgatatggatgcag
 || || ||||||||||| || ||||| || ||  | ||  |||||||||||||| ||||||||||||||||||| || |||| ||| ||   ||| ||||| |   |   |  | |  ||| ||||    | |    | ||| || | |   |    ||  ||    ||  | |  ||    |  | ||    | ||| ||  |   ||||| |||    ||   || |||    | | || ||   | |  | | ||||  |  || |  | |   |         
GGAGCGCGTCATCGGAACGCTACTCGGCTCCATTCTCCCCAACGGAACCGTCGATGTCCGCAATTCATACGCCGTTCCGCACAGTGAGTCCGTCGACCAGgtcctgcacactatttttactacatttgatttttaatcctattttcatgttaattattatttta----ttctggatttgtttctacgatttcatgaatgatgtttacgtatagaagtccgtttttttttatat---atgtttttggagtttacttaattttt-gatttgttttctcgcag--------

upper sequence: AT2G39990.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA14G06690.1 (Glycine max), 5'ss of exon 1
TGAACGAGTCATCGGAACTCTCCTCGGATCTATCTTACCTGACGGAACCGTCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcg--aaattttgatctctaaatttctcctctctctcgattctctatcgttggagatcctagatctttcgtagctgaagatttgcttgttaggatgtgaatgtttataggagtagtgttagcttcataccccaaggttg--tgacttgtgataagttttgagggttatggtttgatatggatgcag
 || || ||||||||||| || ||||| || ||  | || ||||||||||||||| |||||||||| |||||||| || ||||  || ||   ||| ||||| |   | | | |     ||| |||     | |       ||  |  |  ||    || || ||| |   ||  ||     |||  ||  | |    ||  |   |  || |||   ||||  |   |      || ||   | | || | ||  |||||     | |  |                
GGAGCGCGTCATCGGAACGCTACTCGGCTCCATTCTCCCCGACGGAACCGTCGATGTCCGCAATTCCTACGCCGTTCCGCACAGCGAGTCCGTCGACCAGgtcctgcacactctttcgcctacattcaatttttacactccttacccttatttttttattcttgattt---gtttctacgattttattttatggatgatgtttacgtgcagaagtc-cgttatttctgtttttggagtttacttaattttttatttgttttt----tcacag----------------

upper sequence: AT2G39990.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA11G35020.1 (Glycine max), 5'ss of exon 1
TGAACGAGTCATCGGAACTCTCCTCGGATCTATCTTACCTGACGGAACCGTCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaattttgatctctaaatttctcctctctctcgattctctatcgttggagatcctag---atctttcgtagctgaagatttgcttgttaggatgtgaatgtttataggagtagtgttagcttcataccccaaggttgtgacttgtgataagttttgagggttatggtttgatatggatgcag
 || || ||||||||||| || ||||| ||  || | || || ||||||||||||||||||||||| || || || |||||||| |||||   ||| |||||||   | |||  | | ||   ||      |   ||   |   ||||  |    ||  |||   || |||  |||| |  | | | | | | ||||  | |                                                                                     
CGATCGTGTCATCGGAACCCTACTCGGCTCCGTCCTTCCCGATGGAACCGTCGATATCCGCAATTCCTATGCTGTTCCTCACAACGAATCTATCGAACAGgttcttcactttcttttttactattaattgttaattca--ttattatcaataataattttagtatatatttgttagccgctgctatacatatgaggagttta-------------------------------------------------------------------------------------

upper sequence: AT2G39990.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv13s0019g03470.t01 (Vitis vinifera), 5'ss of exon 1
TGAACGAGTCATCGGAACTCTCCTCGGATCTATCTTACCTGACGGAACCGTCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaattttgatctctaaatttctcctctctctcgattctctatcgttgga--gatcctagatctttcgtagctgaagatttgcttgttaggatgtgaatgtttataggagtagtgttagcttcataccccaaggttgtgacttgtgataagttttgagggttatggtttgatatggatgcag
 || |||||||||||||| |||||||| || ||||  || || || ||||| ||||| |||||||| ||||| || ||||||||||| || |||||||||||  |   || |  |  |||||||  ||   | | | | ||   | | ||| |   | |  | ||| |||  |   |     |||  ||  |  ||||||||   |                                                                                
CGAGCGAGTCATCGGAACCCTCCTCGGTTCGATCTCTCCCGATGGCACCGTAGATATTCGCAATTCTTACGCTGTTCCTCACAATGAGTCCTCCGATCAGgtctgtttttctctttgctaaatta-tcgcttttttgggttaatttttgttaggttgtttttggatttttttttttt-----tttaattcatgcgatgtgaagaat--------------------------------------------------------------------------------

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|164018259|gb|ES116658.1|ES116658
EST:     TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCTTCTGATCAG                         GTTGCTGTGGA
genomic: TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaatt ... atggatgcagGTTGCTGTGGA
EST: gi|116476016|gb|EG518608.1|EG518608
EST:     TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAG                         GTTGCTGTGGATATTGATTACCACCACAATATGTTAGCTTCACACCTTAAG
genomic: TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaatt ... atggatgcagGTTGCTGTGGATATTGATTACCACCACAATATGTTAGCTTCACACCTTAAG
EST: gi|116465250|gb|EG507842.1|EG507842
EST:     TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAG                         GTTGCTGTGGATATTGATTACCACCACAATATGTTAGCTTCACACCTTAAG
genomic: TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaatt ... atggatgcagGTTGCTGTGGATATTGATTACCACCACAATATGTTAGCTTCACACCTTAAG
EST: gi|125145178|gb|EL180375.1|EL180375
EST:     TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAG                         GTTGCTGTGGATATTGATTACCACCACAATATG
genomic: TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaatt ... atggatgcagGTTGCTGTGGATATTGATTACCACCACAATATG
EST: gi|125320464|gb|EL334549.1|EL334549
EST:     TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAG                         GTTGCTGTGGATATTGATTACCACCACAATATGTTAGCTTCA
genomic: TCGATATCCGCAATTCATACGCCGTCCCTCACAATGAATCATCCGATCAGgttcgaaatt ... atggatgcagGTTGCTGTGGATATTGATTACCACCACAATATGTTAGCTTCA