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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaccctttctctctctatctctaaaagagtatgtattattcaattttttcattcattcgtttatttgttttttattttcttcgttttttgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATACGAGAATGTCCACCGGTTACAACATCCTCACTCGCGATTACTCCAAAATC

Basic information

species Glycine max
transcript GLYMA08G39420.4
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G39420.4 (Glycine max), 3'ss of exon 1
lower sequence: AT3G60820.3 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------------gttaccctttctctctctatctctaaaagagtatgtattattcaattttttcattcattcgtttatttgttttttattttcttcgttttttgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATACGAGAATGTCCACCGGTTACAACATCCTCACTCGCGATTACTCCAAAATC
                                            |||   | | |||   |   ||| |     |||    |   | ||| | | |   ||||  ||| |     |||| |   |  || ||||  ||| ||||||| || || |||||| | |||||||| ||||||||||| |||||  | ||||| || |||||||  || || | |||||||||||||||||||
gtacggatcgtgtgacctttaatcaacctgctgggtttcttcgcttagtgtctttcttctttattctgatttgctat---ctgggcgattgtgttacg-attcacttactgtgaatttaatcgttgtgtgtttttcagAACATGTGTGGCCATCGCTGGATCGGATTACTGTGTTATCGCCGCCGATACTCGGATGTCTACTGGTTACAGTATTCTTAGTCGCGATTACTCCAAAATC

upper sequence: GLYMA08G39420.4 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0048g00900.t01 (Vitis vinifera), 3'ss of exon 1
----------------gttaccctttctct-ctctatctctaaaagagtatgtattattcaatttttt----cattcattcgtttatttgtttt-ttattttcttcgttt-----tttgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATACGAGAATGTCCACCGGTTACAACATCCTCACTCGCGATTACTCCAAAATC
                 || | || |||   || |||| || | |  |||| |||   | ||||  ||     ||||  | ||| | |  |  | || ||||| |  | |     |||| ||||| |||||||| ||||| || || ||||||||||| ||||| || |||||  | ||||| ||||| ||||| |||||||||||||||||||| ||||||
gtactctctttctaaactttctctctctagactttatcccttataatgtatatatcgattaattgattgtgatattcgatggttgaatgatgatgttgttttcgtgatatatgtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATACTCGGATGTCGACCGGCTACAATATCCTCACTCGCGATTACTCTAAAATC

upper sequence: GLYMA08G39420.4 (Glycine max), 3'ss of exon 1
lower sequence: PP1S54_196V6.2 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------------------gttaccctttctctctctatct-ctaaaagagtatgtattattcaattttttcattcatt-cgtttatttgttttttattttcttcgttttt-tgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATACGAGAATGTCCACCGGTTACAACATCCTCACTCGCGATTACTCCAAAATC
                                                                        ||   | ||    | | | ||   || |  | |  |   |    |   | |  ||  |     | ||||||  | ||||| | || |    | || ||  ||||||| || || |||||||||||||||||||| || || || |||||||| ||||| || || | ||  ||  | || || ||||| || ||||| 
gtaacttttctgtcatgctcgcaatagacctcttcggaagctgaagacggtgtgcaaacactgattatgcctgtggtctttcaattttttctcggttatattacttcgcgctccgtagcctatcgatcaagcatatgtatttgaatgttattgtgttggcggatatgcagGACATGTGTGGCTATAGCTGGAGCAGATTACTGCGTGATAGCAGCTGATACGAGGATGTCTACTGGGTTCAGTATTTTAACCCGGGATTATTCGAAAATT

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|192314692|gb|FK005960.1|FK005960
EST:     GACGAAACAACATGCCAATTGGTCTCCTTACGATAACAACGGA--G---G                         ATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATAC
genomic: GACGAAACAACATGCCAATTGGTCTCCTTACGATAACAACGGAGGGTAAGgttacccttt ... ttttttgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATAC
EST: gi|298165462|gb|HO011511.1|HO011511
EST:     GACGAAACAACATGCCAATTGGTCTCCTTACGATAACAACGGA--G---G                         ATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATAC
genomic: GACGAAACAACATGCCAATTGGTCTCCTTACGATAACAACGGAGGGTAAGgttacccttt ... ttttttgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaattttttcattcattcgtttatttgttttttattttcttcgttttttgtagATCATGTGTTGCGATTGCTGGAGCAGATTACTGCGTTATCGCCGCAGATACGAGAATGTCCACCGGTTACAACATCCTCACTCGCGATTACTCCAAAATC
                 ttcgtttatttgtttt  CT-rich tract
     ttttttcattcattcg  TA-rich tract