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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccaaatatattactaaacatatttgtattgggaatggctttggaagaatattctttgtgaaaaattgttagactaattgcttccttgggaaatatttcagGCCTCATTACAATTTAAATCTGCAGAGCATCTCTGTTAATGGCCAAATTGTGCGGATTGCCCCTTCAGTTTTTGCTACATCAAACAACAGAGGTACCATT

Basic information

species Glycine max
transcript GLYMA11G19640.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19640.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G22850.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------------------------------------ccaaatatattactaaacatatttgtattgggaatggctttggaagaatattcttt-gtgaaaaattgttagac-taattgcttccttgggaaatatttcagGCCTCATTACAATTTAAATCTGCAGAGCATCTCTGTTAATGGCCAAATTGTGCGGATTGCCCCTTCAGTTTTTGCTACATCAAACAACAGAGGTACCATT
                                                              | |   | |  ||| |||  |  ||||   ||| |  |||    ||| ||| || | ||   | || ||  | | ||    |     |  || || ||||||||||||||||| | ||||||| ||||||||| || |||||||||  | | |  ||    || || || ||  |||||||||||  |   || || || 
gtgagtgttcatttatccctcgaaaccgtttcattttaaatagttgttcaaatgttcattagagagtgactgataagcatgatcttattta-aatag--ttgctcaaatgttcattagagattgactgataagcatgatcttatggcgtgttaaaatgtcagGCCTCATTACAATGTGAATCTGCTGAGCATCTCAGTAAATGGCCAAGCTTTACCTATCAATCCATCGGTCTTCTCTACATCAAACGGCCAGGGAACAATC

upper sequence: GLYMA11G19640.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0061g01030.t01 (Vitis vinifera), 3'ss of exon 4
--ccaaatatattactaaacatatttgtattgggaatggctttggaagaatattctttgtgaaaaattgttagactaattgcttccttgggaaatatttcagGCCTCATTACAATTTAAATCTGCAGAGCATCTCTGTTAATGGCCAAATTGTGCGGATTGCCCCTTCAGTTTTTGCTACATCAAACAACAGAGGTACCATT
    |  |  | || |  | |||   || |   || | |   |     ||   |    |    ||||||   |  | || ||||        ||  || |||||| ||||| ||||| ||| |||||||||||||||| |||||  ||    |    |||| |||    || ||||| ||||||| |||| |||| ||||||
agatatgttcaatatttgaaataaaagtttgaagatttgaaatatgtaaaccctgacagcattaaattgactg--tgatggcttgtgcaaccaaacttgcagGCCCCATTATAATTTGAATTTGCAGAGCATCTCTGTCAATGGGAAATCGTTAGCCATTGACCCAGAGGTGTTTGCAACATCAACCAACCGAGGAACCATT
















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|7925312|gb|AW831399.1|AW831399
EST:     GGTGAAATTGTGGAGCCAAACATAGTTTATAGTCCACTTGTTCCATCACA                         GCCTCATTACAATTTAAATCTGCAGAGCATCTCTGTTAATGGCCAAATTGT
genomic: GGTGAAATTGTGGAGCCAAACATAGTTTATAGTCCACTTGTTCCATCACAgtacgttcat ... aatatttcagGCCTCATTACAATTTAAATCTGCAGAGCATCTCTGTTAATGGCCAAATTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatattctttgtgaaaaattgttagactaattgcttccttgggaaatatttcagGCCTCATTACAATTTAAATCTGCAGAGCATCTCTGTTAATGGCCAAATTGTGCGGATTGCCCCTTCAGTTTTTGCTACATCAAACAACAGAGGTACCATT
                         gactaat  putative branch site (score: 2)
              aaaaattgtta  TA-rich tract