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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaactatacttgatcacttctctcatttgtacataattcagatgtggtatatatcagggaaacaaataatgtatttacaattttgtcttgacatcacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCTCAGGGTGAACACAAGATTCAGCGGGGATATCTTCCTGTGACAACTTATA

Basic information

species Glycine max
transcript GLYMA07G40290.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40290.3 (Glycine max), 3'ss of exon 6
lower sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 9
aaaactatacttgatcacttctctcatttgtacataattcagatgtggtatatatcagggaaacaaataat--gtatttacaattttgtcttgacat-cacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCTCAGGGTGAACACAAGATTCAGCGGGGATATCTTCCTGTGACAACTTATA
                  |  |||  ||  | || | |    |   |   | |  | | || | |  | ||    | | ||||  |  |  ||  || || |||||||||||||||| || || || ||||| ||||| ||||| || ||||| |||||||| || ||||||||||| || || ||||| || | ||| ||||
----------------gttggtcttgttgtttcaaagtctcaa---gagttttcgccgagacatacttgattaaaactcacaaactgataatgggattcatagGCAATTGAAGCAGCGATAGAGCTTAATCTGAAAACGGTAGAAGCTGGAGCGCAGGGTGAGCATAAGATTCAGCGAGGCTACCTTCCCGTTAAAACATATA

upper sequence: GLYMA07G40290.3 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g01750.t01 (Vitis vinifera), 3'ss of exon 10
aaaactatacttgatcacttctctcatttgtacataattcagatgtggtatatatcagggaaacaaataa-tgtatttacaattttgtcttgacatcacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCTCAGGGTGAACACAAGATTCAGCGGGGATATCTTCCTGTGACAACTTATA
 |  |  || |  || ||  |    |   ||    |  | |  ||    | |  | |   |||    |   | |||||    | | ||  |   |||||||||||| ||||||||||||||||| ||||| || |  ||||||||||||||||| ||||| || ||||||||||| || ||| | |||||||||||||| |
-attcattagtgtataacgacataaagaagtgagaatgtgaactgcttgaaaagtgatataaatttgtttctttattttatgtgtggtgatattatcacagGCAATAGAAGCAGCTATTGAACTTAATCTGAACAAAGTAGAGGCAGGAGCTCAAGGTGAGCATAAGATTCAGCGTGGCTATATGCCTGTGACAACTTACA
















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|192318530|gb|FK008274.1|FK008274
EST:     AGCCACGAAGTTACTACCCAAGTTTGCATTTTGAAGCGTGTTATTACCAG                         GCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCT
genomic: AGCCACGAAGTTACTACCCAAGTTTGCATTTTGAAGCGTGTTATTACCAGgtacatgtgt ... gacatcacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCT
EST: gi|7795537|gb|AW780934.1|AW780934
EST:     TGTTATTACCAG                         GCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCT
genomic: TGTTATTACCAGgtacatgtgt ... gacatcacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtatatatcagggaaacaaataatgtatttacaattttgtcttgacatcacagGCAATTGAAGCAGCTATTGAACTCAATCTTAAAACTGTAGAGGCAGGAGCTCAGGGTGAACACAAGATTCAGCGGGGATATCTTCCTGTGACAACTTATA
                                         tcttgac  putative branch site (score: 3)
               aaacaaataatgtatt  TA-rich tract