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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaagatctcaaccttattttgatgatagatatggcattgtggtatatttatttctaattttgttgtgggatagGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATATGGCTCCTTCCATACATGCTTCCATTTCATCCAG

Basic information

species Glycine max
transcript GLYMA01G00430.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 4
--------gttaagatctcaacct-tattttgatgatag-atatggca--ttgtggtat---atttatttct-------aattt-----tgttgtggg-atagGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATATGGCTCCTTCCATACATGCTTCCATTTCATCCAG
        |||  || ||| | || |  ||| | | ||   ||||  |  || || ||    | | || | |        || |     |  |||    | ||||||||||||  | ||||||||| |||||||| || ||||| |||||||||||||| || |||||  | || ||| | |||||||
gtactaaagttttgacctctatctgtcctttaaagttatcgtatgaaaatttctgttacttgactcatctttttgcttggatctgctaatactgtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATATGGCTTCTCCCATATTTCCTGCCAATACATCCAG

upper sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------gttaagatctcaaccttattttgatgatagatatggcattgtggtatatttatttctaattttgttgtgggatagGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATATGGCTCCTTCCATACATGCTTCCATTTCATCCAG
                          ||||    | ||| | || || |||     |   |   | || |  |||| | | |    |  | ||   | ||||||||||||| | |||||||||||| |||||||| ||||||||||| |||||||| ||||| || || || ||| | |||||||
gttcagtgtattttcttcttttcattttaaacagtgaacttcatgtttatgggcactccagagatatgtttaatttgtgtattgcataatggt--aacagGTACTTGGAGTATTTGAATGGTCTGGCAATAATCCTCTGCCCCCTGAAATATGGCTTCTTCCCTATATCCTACCAGTCCATCCAG

upper sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S33_211V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------------gttaagatctcaaccttattttgatgatagatatggcattgtggtatatttatttctaattttg---ttgtgggat---agGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATATGGCTCCTTCCATACATGCTTCCATTTCATCCAG
                     ||  || | |||||| |  | ||  ||  | | ||    | || |  || |  ||  ||  ||    || |  |||   |||| |||||||| | ||||||||| ||||| ||||||||||| ||||| |  ||| | || || ||  | |||||  | |||||||
gtattcaagactcgggtgcttgtatagttatcaaccatgctgtg--gaacggtttgaatatatgattaatctccttgcaaccttcggtttatctgatgccagGTTCTTGGAGTATTTGAATGGTCAGGAAACAATCCCCTGCCTCCTGAAACTTGGATACTGCCGTATTTTCTTCCTATGCATCCAG

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|120495719|gb|EH223886.1|EH223886
EST:     GGCATGGTGGTGCTACTTATATAACGTCATGGGGGAAGATGTGGCTTTCA                         GTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATA
genomic: GGCATGGTGGTGCTACTTATATAACGTCATGGGGGAAGATGTGGCTTTCAgttaagatct ... tgtgggatagGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatgatagatatggcattgtggtatatttatttctaattttgttgtgggatagGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATATGGCTCCTTCCATACATGCTTCCATTTCATCCAG
                                 ttctaat  putative branch site (score: 2)
                                       ttttgtt  CT-rich tract
                        tatatttatttctaat  TA-rich tract