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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaattatggatttcttcatgttaatattttctttttgtaaattcatgtagtcatcttggtaaagtattgtttatttgtacttttgcaatgcttttgcattaaggttattgattgaatgctgatttttatcttcatttgctatctgtttagACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCTCATTTGGATCTTATTTCAAATACTGAG

Basic information

species Glycine max
transcript GLYMA09G00460.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G00460.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv19s0027g01090.t01 (Vitis vinifera), 3'ss of exon 12
gtataaattatggatttcttcatgttaatattttctttttgtaaattcatgtagtcatcttggtaaagtattgtttatttgtacttttgcaatgcttttgcattaaggttattgattgaatgctgatttttatcttcatttgctatctgtttagACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCTCATTTGGATCTTATTTCAAATACTGAG
                                          ||     |||| ||     ||  ||| |||    ||| ||   | | |       |   ||  ||  | |  ||   |     |||||| |     | |||| |   |||||||||||||||| |||||||| ||||| ||||||||||| || ||||||||||| |  |||||  |||| |||| ||||
------------------------------------------aatcagttgtaatctgaggggataagaatta--aattggtgaatgtacttcatgatctgatagagcctttacatcatac----attttttt-----tctgctgttc-tttagACAGGATGCTTTTGCAATCCTGGTGCTTGTGCAAAATATCTGGGCTTGTCTCACTCTGATCTGCTTTCCAATATTGAG

upper sequence: GLYMA09G00460.2 (Glycine max), 3'ss of exon 12
lower sequence: PP1S23_133V6.1 (Physcomitrella patens), 3'ss of exon 12
-------------------------------gtataaattatggatttcttca-tgttaatattttctttttgtaaattcatgtagtcatcttggtaaagtattgtttatttgtacttttgcaatgcttttgcattaaggtt-------attgattgaatgct-gatttttatcttcatttgctatctgttt-----agACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCTCATTTGGATCTTATTTCAAATACTGAG
                                | || ||     |||| | || ||     | || | ||   |      |  ||    | || | |      |||   |      ||       | | |   | |   |||       | | |||  || ||  |   || |  || | |  ||||| |||     |||| || || ||||||||||||||||| |||||||||||| | ||  | || ||   ||| ||| |  | |||  ||||
gtatggctcatttaaaagaaaatagatctttttctagatcgcaaatttttgcactgcagccacttaccttccatttgccgaactaccagtatttgcacgaatctgtagttcctggtttactgtgcgttctgttactggtgttgatctcaactaattttatcctcaaacctttttctcgtattttatctattttttgcagACTGGCTGTTTCTGCAATCCAGGTGCTTGTGCAAAATACTTGGGGCTCTCACAAGAGGACCTTGTGGCTAATTTTGAG
















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|151402728|gb|EV272541.1|EV272541
EST:     GATACCGTGAAGTGGAAAAGCTGGCATCACTTTCAGGAATTCAGCTAAGG                         ACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCT
genomic: GATACCGTGAAGTGGAAAAGCTGGCATCACTTTCAGGAATTCAGCTAAGGgtataaatta ... atctgtttagACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCT
EST: gi|7147103|gb|AW509025.1|AW509025
EST:     GATACCGTGAAGTGGAAAAGCTGGCATCACTTTCAGGAATTCAGCTAAGG                         ACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCT
genomic: GATACCGTGAAGTGGAAAAGCTGGCATCACTTTCAGGAATTCAGCTAAGGgtataaatta ... atctgtttagACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattaaggttattgattgaatgctgatttttatcttcatttgctatctgtttagACAGGATGCTTCTGCAATCCAGGTGCATGTGCAAAATACCTTGGCTTGTCTCATTTGGATCTTATTTCAAATACTGAG
                     tgctgat  putative branch site (score: 3)
                                              tctgttt  putative PPT
                          atttttatcttcattt  TA-rich tract