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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttcttttattatttttaattgatcttatgttttcattgtgttattcaatggttggatttgacattgaatttgtttgttatctttttcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG

Basic information

species Glycine max
transcript GLYMA12G04820.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 2
----gtttttcttttattatttt-taattgatcttatgttttcattgtgttattcaatggttggat-ttga--cattgaatttgtttgttatctttttctt-ttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG
    |||| |      ||||| | |  ||||  || | || ||  | | || |||  |  |||||  ||||  | |     |  ||| ||||  | ||||  |||||||| || ||||| ||| | |||||||||||||| ||||||||||||||||||
gtaagtttatgccaccttattctgtggttgaatttgttttctctgttt-ttcttccttatttggaaattgattcttctgggtctttttttattgtattctcattccagGTCATTACAAAGCTTCTGTATCTACTGAATCAAGGAGAGACATTTACAAAG
















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|208253489|gb|GE054277.1|GE054277
EST:     AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAG                         GTTATCACAAAACTTTTATACCTACTGAATCAGGGAGAGACATTTACAAAG
genomic: AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAGgtttttcttt ... tcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG
EST: gi|213620091|gb|DB965397.1|DB965397
EST:     AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAG                         GTTATCACAAAACTTTTATACCTACTGAATCAGGGAGAGACATTT
genomic: AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAGgtttttcttt ... tcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTT
EST: gi|209696738|gb|BW660435.1|BW660435
EST:     AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAG                         GTTATCACAAAACTTTTATACCTACTGAATCAGGGAGAGACATTTACAAAG
genomic: AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAGgtttttcttt ... tcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG
EST: gi|209720618|gb|BW677326.1|BW677326
EST:     AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAG                         GTTATCACAAAACTTTTATACCTACTGAATCAGGGAGAGACATTTACAAAG
genomic: AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAGgtttttcttt ... tcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG
EST: gi|209703331|gb|BW683311.1|BW683311
EST:     AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAG                         GTTATCACAAAACTTTTATACCTACTGAATCAGGGAGAGACATTTACAAAG
genomic: AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAGgtttttcttt ... tcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG
EST: gi|193609379|gb|FK561207.1|FK561207
EST:     AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAG                         GTTATCACAAAACTTTTATACCTACTGAATCAGGGAGAGACATTTACAAAG
genomic: AGGCCAGGGTTTTTAATGACCCACAACTAGATGCTAGGAGATGTTCACAGgtttttcttt ... tcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattcaatggttggatttgacattgaatttgtttgttatctttttcttttccagGTTATCACAAAACTTTTATATCTACTGAATCAGGGAGAGACATTTACAAAG
               atttgac  putative branch site (score: 4)
                            tttgtttgttatcttt  putative PPT
                                    ttatctttttctttt  TA-rich tract