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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catcagataaatgctacatgatgttagcaaacaacaatatggatgttattctttgggttgtcgtagtcttcataaagctaattgttgtttgattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCCATCGTTCATGTCTTGATCATTGGCGCTCAGTAAAG

Basic information

species Glycine max
transcript GLYMA05G08220.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G08220.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 3
catcagataaatgctac-atgatgttagcaaacaacaatatggatgttattctttgggttgtcgtagtcttcataaagctaa--ttgttgtttgattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCCATCGTTCATGTCTTGATCATTGGCGCTCAGTAAAG
 ||    | | |  |    |  | ||  |   |   ||| | | ||| |  ||| || ||||  |  | |   |      ||  ||||| ||| ||||| |||| ||||||||||||||||| |||||||||||||| |||||||||||||| ||||||||||| |||||||||||||| ||||| |||
gatgcctttacttttgttgttcttttttctttcctaaatcttgttgtaa--cttgggcttgttcttttttctttggtctcaagattgtt-tttcattttatagATGATGAATTGATATCTCCATGCATGTGCAAAGGCACCCAACAGTTTGTTCATCGTTCATGCCTTGATCATTGGCGTTCAGTGAAG

upper sequence: GLYMA05G08220.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ26224 (Selaginella moellendorffii), 3'ss of exon 1
catcagataaatgctacatga-tgttagcaaacaacaatatggatgttattctttgggttgtcgtagtcttcataaagctaattgttgtttgattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCCATCGTTCATGTCTTGATCATTGGCGCTCAGTAAAG
                  | | | || || |  | | || |   | ||      |  ||      | ||||| |     |  |     |      ||  ||  ||||||||||| ||||| || |||||||| ||||| |||||||| |||||||| ||||| || ||||| |||||||| || |||
-----------------gtaagtctttgctagaatcgatctt--tcttccgtgctaagtaagaaaattcttctttggttttttacccttgatgcgttccagGCGATGAATTGATCTCTCCTTGTATGTGCAAGGGGACTCAACAGTTCGTCCATCGATCATGCCTCGATCACTGGCGCTCGGTCAAG

upper sequence: GLYMA05G08220.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ14522 (Selaginella moellendorffii), 3'ss of exon 1
catcagataaatgctacatga-tgttagcaaacaacaatatggatgttattctttgggttgtcgtagtcttcataaagctaattgttgtttgattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCCATCGTTCATGTCTTGATCATTGGCGCTCAGTAAAG
                  | | | || || |  | | || |   | ||      |  ||      | ||||| |     |  |     |      ||  ||  ||||||||||| ||||| || |||||||| ||||| |||||||| |||||||| ||||| || ||||| |||||||| || |||
-----------------gtaagtctttgctagaatcgatctt--tcttccgtgctaagtaagaaaattcttctttggttttttccccttggtgcgttccagGCGATGAATTGATCTCTCCTTGTATGTGCAAGGGGACTCAACAGTTCGTCCATCGATCATGCCTCGATCACTGGCGCTCGGTCAAG

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|21600809|gb|BQ611140.1|BQ611140
EST:     GTCGAATTTGCCTCGAAAGCGATTCCGACCCAG                         AGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCC
genomic: GTCGAATTTGCCTCGAAAGCGATTCCGACCCAGgtgaaaattc ... gattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCC
EST: gi|209711926|gb|BW679005.1|BW679005
EST:     TGGATTACTCCCCTGTTGTCGAATTTGCCTCGAAAGCGATTCCGACCCAG                         AGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCC
genomic: TGGATTACTCCCCTGTTGTCGAATTTGCCTCGAAAGCGATTCCGACCCAGgtgaaaattc ... gattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattctttgggttgtcgtagtcttcataaagctaattgttgtttgattttgtagAGGATGAATTGATATCTCCGTGCATGTGCAAAGGGACCCAACAGTTTGTCCATCGTTCATGTCTTGATCATTGGCGCTCAGTAAAG
                                          tttgatttt  TA-rich tract