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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaaacttggcttttgaattgttaaaggcacttcttttcaggttactcggaagtgaagcttatgttgttatttgatgattgttttgacagAGTGTGGATGTTAATTTGATAATGACGGATTATTCCATGCCGGGGATGACAGGATACGAATTGCTCAAAAAGATTAAG

Basic information

species Glycine max
transcript GLYMA06G19870.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G19870.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G48100.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagaaaacttggcttttgaattgttaaaggcacttcttttcaggtt--actcggaagtgaagcttatg--ttgttatttgatgattgttttgacagAGTGTGGATGTTAATTTGATAATGACGGATTATTCCATGCCGGGGATGACAGGATACGAATTGCTCAAAAAGATTAAG
|||| ||| || |    |||  ||  |||      |     | ||  |  | ||  |  ||  | | |    || ||  ||    ||| | ||   ||  | || |  |||||||||||||||||||||| || ||||| |||||||| ||||| ||| | || || ||||| || 
gtaataaatct-gatcattgtgtt--taatatttttgagagtgagaatccattcaaatttggtgttaaaagatttttggtttgaaattatattt-tagGATCTGAAGATTAATTTGATAATGACGGATTACTCTATGCCTGGGATGACTGGATATGAACTACTGAAGAAGATCAAA

upper sequence: GLYMA06G19870.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv17s0000g07580.t01 (Vitis vinifera), 3'ss of exon 2
gtaagaaaacttgg---cttttgaattgttaaaggcacttcttttcaggttactcggaagtgaagctt--atg-ttgttattt-gatgattgttttgacagAGTGTGGATGTTAATTTGATAATGACGGATTATTCCATGCCGGGGATGACAGGATACGAATTGCTCAAAAAGATTAAG
| ||  ||||   |    |||||  ||           ||   ||||      ||   | |   | ||  ||| ||| ||| |  ||| ||   |||| || || || | || ||| |||| |||||||| ||||| ||||| ||||||||||| || || |||||||| ||||| |||
gcaaataaacagaggtctttttgtttttccttttttgattaaattcaaagatttctttaatactgtttggatgattgatatctcaatggtttccttga-agGGTTTGAAGGTGAATCTGATCATGACGGACTATTCTATGCCTGGGATGACAGGGTATGAGTTGCTCAAGAAGATCAAG
















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|254342342|gb|GR853479.1|GR853479
EST:     CTCTACAGTATCTGGGGTTGGATGGAGAAAAAAGTTCCATTGGTTTTGAT                         AGTGTGGATGTTAATTTGATAATGACGGATTATTCCATGCCGGGGATGACA
genomic: CTCTACAGTATCTGGGGTTGGATGGAGAAAAAAGTTCCATTGGTTTTGATgtaagaaaac ... gttttgacagAGTGTGGATGTTAATTTGATAATGACGGATTATTCCATGCCGGGGATGACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcaggttactcggaagtgaagcttatgttgttatttgatgattgttttgacagAGTGTGGATGTTAATTTGATAATGACGGATTATTCCATGCCGGGGATGACAGGATACGAATTGCTCAAAAAGATTAAG
                                  atttgat  putative branch site (score: 5)
                                           ttgtttt  putative PPT
                        ttatgttgttattt  TA-rich tract