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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaaagttcaagattgactttttgaaaaaggaatatttttcactagctgattctgatattttatattaccgacatatgtcggagtttcccccctttcatgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGGCCTCCCACTCCAGTGTCTGATGGTTCCTTCTATTTTCCAACTAACGTAA

Basic information

species Glycine max
transcript GLYMA13G42230.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42230.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g27950.1 (Oryza sativa), 3'ss of exon 11
--gtgtgaaagttcaagattgact-ttttgaaaaaggaatatttttcactagctgattctgatattttatattaccgacatatgtcggagtttcccccctttcatgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCG---CCTGCTCGGCCTCC-CA--CTCCAGTGTCTGATGGTTCCTTCTATTTTCCAACTAACGTAA
   | |   |    |    || ||  |||     | | |||||  |    | ||  | ||   ||  | | |  |  |        |     |      | | |    |  ||||||||||||| ||||||||||| |||||||| | ||||||     |||   ||||||| ||  ||||||  ||||||||  | | ||| | | | | ||      
gtctatcgtatactacatctggctgcttttgtgcatggatattgataggcatctattcctctgatcatttgtgtcgcaaggtcactgacaactgttatttctaa----accagGAATTCAAGCTGAACCCTAATGCTAAGAGTTTCACTCCATCAACTTCTGTGAGGCCTCCACAACCTCCAGCATCTGATGGACCATACTACTATGCTAATA------

upper sequence: GLYMA13G42230.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv09s0002g01560.t01 (Vitis vinifera), 3'ss of exon 11
gtgtgaaagttcaagattgactttttgaaaaaggaatatttttcactagctgattctgatattttatattaccgacatatgtcggagtttcccccctttca----tgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATC------GCCTGCTCGGCCTCCCACTCCAGTGTCTGATGGTTCCTTCTATTTTCCAACTAACGTAA
               ||  |  | |  | ||     |||  || |||  || ||  |    |||| |  ||    ||| |       |||      ||| |    || ||| |||||||||| || || || |||||||||||||| || |||||       ||||   |||| ||  | |||||||| |||||||| ||||||||||||||||      
------------cttataaatatctatacaagcacctatcatttact--cttataatatacttttttgctaatctcatttccattgtttttttggtttttaacattgctatcagGAATTCAAACTCAATCCCAATGCAAAGAGTTTCATCCCATCTCAAACACCTGTAAGGCCGCCATCCCCAGTGTCAGATGGTTCATTCTATTTTCCAACTA------
















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|21887595|gb|BQ740808.1|BQ740808
EST:     CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAG                         GAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
genomic: CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAGgtgtgaaagt ... atgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
EST: gi|22930642|gb|BU547789.1|BU547789
EST:     CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAG                         GAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
genomic: CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAGgtgtgaaagt ... atgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
EST: gi|14205753|gb|BG839431.1|BG839431
EST:     CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAG                         GAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
genomic: CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAGgtgtgaaagt ... atgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
EST: gi|208192411|gb|GD988803.1|GD988803
EST:     CAGTTTGTTCACTGTCCTCTGAAAAATCAACTCTGAATCCCAATGCAAAG                         GAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG
genomic: CAGTTTGTTCACTGTCTTCTGAAAAATCAACTCTGAATCCCAATGCAAAGgtgtgaaagt ... atgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgatattttatattaccgacatatgtcggagtttcccccctttcatgttataagGAATTCAAGCTTAACCCTAATGCAAAGAGTTTTATTCCATCGCCTGCTCGGCCTCCCACTCCAGTGTCTGATGGTTCCTTCTATTTTCCAACTAACGTAA
 ttctgat  putative branch site (score: 3)
                                tttcccccctttcatg  putative PPT
     attttatatta  TA-rich tract