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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctataatctgttgtttttctgattgtgcttttcaaatgtgtttgaatccattctctttaaaaatccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATTCGACTTCTAAAATCGCCACATGATACCGTGGAATTAGCCAGACGAATTG

Basic information

species Glycine max
transcript GLYMA01G23820.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G23820.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s2044g00010.t01 (Vitis vinifera), 3'ss of exon 2
--------------------gtaagtctataatctgttgtttttctgattgtgcttttcaaat--gtgtttgaa----tccattctctttaaa-aatccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATTCGACTTCTAAAATCGCCACATGATACCGTGGAATTAGCCAGACGAATTG
                    | || |        | || | ||| | |||     |||  |||   || || |     ||   | || ||    ||||||||| || |||| ||||| |||||| ||| ||| |||||| |||||||||||||||||| |||||||  | || || || || ||||||||    | |||||
gtatgtcatgcatatcgtctggaaattgccttcttattttgtttataattagatgtttgcaattcatggttcaccatttctgctatcattgcttaatccagATATTGACAATATTAAAGAGGAACTTGGACATACCAGTCACATGTAAGATTCGACTTTTAAAATCATCTCAAGAGACGGTAGAATTAGCACAGCAAATTG

upper sequence: GLYMA01G23820.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s2201g00010.t01 (Vitis vinifera), 3'ss of exon 2
--------------------gtaagtctataatctgttgtttttctgattgtgcttttcaaatgtgtttgaatccattctctttaaaa-------atccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATTCGACTTCTAAAATCGCCACATGATACCGTGGAATTAGCCAGACGAATTG
                    | || |        | || | ||| | |||     |||  |||   |      |||||     ||  |       |||||||| || |||| ||||| |||||| ||| ||| |||||| |||||||||||||||||| |||||||  | || || || || ||||||||    | |||||
gtatgtcatgcatatcgtctggaaattgccttcttattttgtttataattagatgtttgcaattcatggttcaccatttctgctattattgcttaatccagATATTGACAATATTAAAGAGGAACTTGGACATACCAGTCACATGTAAGATTCGACTTTTAAAATCATCTCAAGAGACGGTAGAATTAGCACAGCAAATTG
















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|254316199|gb|GR827736.1|GR827736
EST:     GTGGTGGGATGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGAT                         ATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATT
genomic: GTGGTGGGATGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGATgtaagtctat ... aaaaatccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATT
EST: gi|151403610|gb|EV273420.1|EV273420
EST:     GTGGTGGGGTGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGAT                         ATCTTAACAACATTAAGGAGGAATTTGGACACACCAGTAACATGTAAGATT
genomic: GTGGTGGGATGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGATgtaagtctat ... aaaaatccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATT
EST: gi|21600377|gb|BQ610708.1|BQ610708
EST:     GTGGTGGGATGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGAT                         ATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATT
genomic: GTGGTGGGATGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGATgtaagtctat ... aaaaatccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctgattgtgcttttcaaatgtgtttgaatccattctctttaaaaatccagATCTTAACAACATTAAGGAGGAATTTGAACACACCAGTAACATGTAAGATTCGACTTCTAAAATCGCCACATGATACCGTGGAATTAGCCAGACGAATTG
   ttctgat  putative branch site (score: 3)
                                     ttctcttta  putative PPT
                                    attctctttaaaaat  TA-rich tract