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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcacttagttactaccctataacttttatgttctagaaaatagtctagtgtaaattagggttcacttttacaataattaatttaccgtaacttcattgcatagaaactaaactctgtattctttttccaatgttcattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAACAAAAAAAGCATTGTCTAAGACTGGACCAGTGAATGCATACAATCCAAAA

Basic information

species Glycine max
transcript GLYMA10G35430.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35430.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G14145.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtcacttagttactaccctataacttttatgttctagaaaatagtctagtgtaaattagggttcacttttacaataattaatttaccgtaacttcattgcatagaaactaaa-ctctgtattctttttccaatgttcattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAACAAAAAAAGCATTGTCTAAGACTGGACCAGTGAATGCATACAATCCAAAA
                                                                                     |      |  ||| |||| | |    || || || |  ||   |     |||||  ||    || | ||      |||     | ||||  |  |  || ||  | |||| ||||||||||||||||| |||||||| || || ||||| || || ||||||| ||| ||| | || |  || ||||| ||  |||| || || || |||
------------------------------------------------------------------------------------gtcagttctttcttgattggaaaacctctgaatctataaatgtctggggaaatgtcaat--gattctgtttagaattcacc---acatatggtttatttg-gttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA

upper sequence: GLYMA10G35430.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g04430.t01 (Vitis vinifera), 3'ss of exon 2
gttagtcacttagttactaccctataacttttatgttctagaaaatagtctagtgtaaattagggttcacttttacaataattaatttaccgtaacttcattgcatagaaactaaactctgtattctttttccaatgttcattctgtttta--ttccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAACAAAAAAAGCATTGTCTAAGACTGGACCAGTGAATGCATACAATCCAAAA
                                                                                            ||   ||    | |  |||   ||   |   | ||||   || ||||   |   |||    || |||| |||| |||||| || |||   || |    |||||||||||||||||  ||||||||||||||||  || ||||| || | |||| |||| |||||| |||| | ||| ||||| ||   ||| || || ||||||
--------------------------------------------------------------------------------------------tattatctggacctttaaa--gaatgttacttgctttactcactgtttggtacctttagcttttcatcatcat-ctaaaagatcatgggtct-ttctagctcagCAAGGATATTGGGAAGGTGAAAGATGATCGTGAATGGGAGATCACTGAAGCAAAGAAAGCACTGTCCAGGACAGGACCGGTTGGTGCGTATAAGCCAAAA
















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|192331625|gb|FK022785.1|FK022785
EST:     TCTCTCACTGTCCTTGGTTCTATAGGCCTTGCCCAACTCTTGCAAGGCAG                         CAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAAC
genomic: TCTCTCACTGTCCTTGGTTCTATAGGCCTTGCCCAACTCTTGCAAGGCAGgttagtcact ... gtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAAC
EST: gi|192324864|gb|FK015360.1|FK015360
EST:     TCTCTCACTGTCCTTGGTTCTATAGGCCTTGCCCAACTCTTGCAAGGCAG                         CAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAAC
genomic: TCTCTCACTGTCCTTGGTTCTATAGGCCTTGCCCAACTCTTGCAAGGCAGgttagtcact ... gtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAACAAAAAAAGCATTGTCTAAGACTGGACCAGTGAATGCATACAATCCAAAA
                       ttctaaa  putative branch site (score: 2)
                                              tctgctc  putative PPT
                    tcattctaaaatataa  TA-rich tract