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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaatatttacttgaccttgatttttatatatttttacctgacattttcagcctttcttcttttttcttttaaaatctacattaagttattgataactactaactacattattacctttctctgtccatcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGGTTCTAAAGCCATCCGAAATTGCTCCGGCCACTTCATCAGTACTAGCAAA

Basic information

species Glycine max
transcript GLYMA04G42740.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G42740.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g02440.t01 (Vitis vinifera), 3'ss of exon 5
gtatgttaatatttacttgaccttgatttttatatatttttacctgacattttcagcctttcttcttttttcttttaaaatctacattaagttattgataactactaactacattattacctttctctgtccatcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGGTTCTAAAGCCATCCGAAATTGCTCCGGCCACTTCATCAGTACTAGCAAA
                                         |  |   ||  | |       || |   |   |||||  | ||     ||   |  ||   ||  ||  |  |||||       ||| ||  ||   ||||||||  | ||||||||||   |||||||||| ||||||||||||||||||||| | || ||||| ||| ||  ||| |||||||| ||| |  | || ||
---------------------------------------caagttattatcgtgattgaccattttgaatctctttaagttgtatggacaggattcaatttttagcaataattttatttgtacaatctctctttc---ccagTGTTAGCTCTTGATCCAGCCATTGGAGCTATTGCAGCTGGTAATGCTGTGGTTTTGAAACCATCAGAACTTTGTCCTGCCACTTCCTCATTGATTGCCAA
















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|192308517|gb|FK002413.1|FK002413
EST:     TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT                         TGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
genomic: TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCTgtatgttaat ... atcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
EST: gi|213595441|gb|DB966537.1|DB966537
EST:     TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT                         TGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
genomic: TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCTgtatgttaat ... atcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
EST: gi|213613770|gb|DB961267.1|DB961267
EST:     TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT                         TGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
genomic: TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCTgtatgttaat ... atcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
EST: gi|192308516|gb|FK002412.1|FK002412
EST:     TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT                         TGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG
genomic: TGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCTgtatgttaat ... atcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagttattgataactactaactacattattacctttctctgtccatcattccagTGTTGTCCCTTGATCCAGTAGTTGGAGCTATAGCAGCTGGTAATGCTGTGGTTCTAAAGCCATCCGAAATTGCTCCGGCCACTTCATCAGTACTAGCAAA
               tactaac  putative branch site (score: 0)
                                cctttctctgtccatc  putative PPT
                  taactacattatta  TA-rich tract