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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgttgtttctccccccttttggatacggatttttcagggttgtatcattgttctgtaaccttttaatacattgctattactattatttaatacattaatttattttattgtccagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCAAGATTCTCTCACAGGACAAGGATCATTTTGCAAAATTAGCTGTGGATGC

Basic information

species Glycine max
transcript GLYMA11G19220.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19220.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G20890.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------------------------------------gtattgttgtttctccccccttttggatacggatttttcagggttgtatcattg-ttctgtaaccttttaatacattgc-----tattactattatttaatacattaatttattttattgtccagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCAAGATTCTCTCACAGGACAAGGATCATTTTGCAAAATTAGCTGTGGATGC
                                               |||| |   |||         | ||  |||      |   |||||  | |  || ||   |  |  || ||||||   |     |   ||| |||||| | |   |  | | |||     | ||||||| || ||||||||||| ||||| ||||| |||||||||||  | ||||| |||||||||||||||||||| ||||||||| || | || ||||||||
gtaatcattatagagatggttaaaccttgttatgctgacatatttaagtatagc-attttcttgtttgtgtgattacttcgactgttgggttcaagcggtgatttcctttcagttgaatacagaacggaaatcacactgttattttacagcattgtatttttgtcaatgcagAGAAGTTTAGGTCAGACTTGTTGAAGATTGCGATGACTACTTTATGTTCCAAAATTCTCTCACAGGACAAGGAACATTTTGCAGAAATGGCCGTGGATGC

upper sequence: GLYMA11G19220.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g00480.t01 (Vitis vinifera), 3'ss of exon 7
gtattgttgtttctccccccttttggatacggatttttcagggttgtatcattgttctgtaaccttttaatacattgctattactattatttaatacattaatttattttattgtccagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCAAGATTCTCTCACAGGACAAGGATCATTTTGCAAAATTAGCTGTGGATGC
                 || | ||||  | |   | ||  |   |   |     |    ||   |||   || |||  |||      ||| | ||  || | |||  |   |  | |||| || |||| || ||||||  |||| |||||||||||||||||||| || || ||||| || ||||||||||| |||||||||||| | || || |||||
-------------ctaaccatgttggtcatgatatattatgtaatacttttccatctaata-tttttccttaaattattata-----tatctcatgaataatttttctggttaatgcagAAAAGTTCAAGTTAGACTTGATGAAGATTGCAATGACTACTTTGAGTTCAAAAATTCTTTCCCAGGACAAGGAACATTTTGCAAAACTGGCAGTAGATGC

upper sequence: GLYMA11G19220.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S116_55V6.1 (Physcomitrella patens), 3'ss of exon 6
--------gtattgttgtttctccccccttttggatacggatttttcagggttgtatcattgttctgta-accttttaatacattgctattactattatttaat-------acattaatttattttattgtc------------------cagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCAAGATTCTCTCACAGGACAAGGATCATTTTGCAAAATTAGCTGTGGATGC
          |  | |  |||| |      | |  |   | ||||| |   |  ||| ||| || | |  |  || | |||    |  |||  | || |  ||         |||| |||| ||| |||                      ||||||||||||||| ||| |  | |||||||| ||||| ||  |||||||||| ||||| ||||||||||| |  |||||||| ||  | ||||| |||||
gtacttcacaaacgcttattcttcgattactcgagttgagtttttttatcttattattattattatttgcaaattatgatagggagtgattgtttttgtcaaagctgaaaagcattgatttttttaattactgaatgtgtgaatatgctgtagAGAAATTCAGGTCTGACCTTGTTAACATTGCTATGACGACGCTGAGCTCCAAAATTCTATCACAGGACAAAGTACATTTTGCTAATCTTGCTGTTGATGC

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|207779467|gb|GD754609.1|GD754609
EST:     TGCCCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCGGATTCTG                         AGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCA
genomic: TGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCAGATTCTGgtattgttgt ... tattgtccagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCA
EST: gi|254325804|gb|GR838685.1|GR838685
EST:     TGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCAGATTCTG                         AGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCA
genomic: TGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAACAAAGCAGATTCTGgtattgttgt ... tattgtccagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaatacattgctattactattatttaatacattaatttattttattgtccagAGAAATTCAGGTCAGACTTATTGAACATTGCAATGACTACTTTGAGCTCCAAGATTCTCTCACAGGACAAGGATCATTTTGCAAAATTAGCTGTGGATGC
                                cattaat  putative branch site (score: 3)
                                      tttatttt  CT-rich tract
         attgctattactatta  TA-rich tract