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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacattttcatcagaattattccttgtaatgtacaggttccattttcaatctgtgattatttgcaccactgagttgatattttgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTATCACTGGTACTGTTCTATATGTTGACAATGGTCTGAATGCTATGGGTGT

Basic information

species Glycine max
transcript GLYMA12G03060.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 12
-gtaacattttcatcagaattattccttgtaatgtacaggttccattttcaatctgtgattatttgcaccactgagttgatattttgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTATCACTGGTACTGTTCTATATGTTGACAATGGTCTGAATGCTATGGGTGT
    | |||  | ||       || | | || ||   | |     || |  | |   | | | ||  |   ||   || ||||   ||    |||| || |||||  ||||||| || ||||||||||| || ||||||||||| ||||||||  |   | | |||||||||||||| || ||| | |||||  |
gtcgaaattaacttctttcagtttgcctctattggg-atgcctatttatgcaccaaaggtcacttataaagctttatttatat---gttcaacagATGAAGTGGGGAACACAGCAGCATTCTTAGCATCGCCGTTGGCATCTGCAATCACTGGATCAACTATCTATGTTGACAATGGGCTCAATACAATGGGACT

upper sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 12
--gtaacattttcatcagaattattccttg---taatgtacaggttccattttcaatctgtgattatttgcaccactgagttgat---attttgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTATCACTGGTACTGTTCTATATGTTGACAATGGTCTGAATGCTATGGGTGT
  |    | |   | |    | || ||||    | || | |   || |||| |  ||       ||    || |  | |  |||    ||    |    |||| ||||||||  |||| ||||||||||| ||||||||| |||||||||| ||||||||| ||||  |||| || || || ||||||||||| ||||||||
gtgggttactgaaaaccctttcatgcctttggtttatatgctcatttcattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT
















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|6915325|gb|AW396855.1|AW396855
EST:     GATTGATTACTCATCAGCCAATGCACCTCTACAGAAAGAAGTATTAGCAG                         AGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTA
genomic: GATTGATTACTCATCAGCCAATGCACCTCTACAGAAAGAAGTATTAGCAGgtaacatttt ... tgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTA
EST: gi|192301956|gb|FG995574.1|FG995574
EST:     GATTGATTACTCATCAGCCAATGCACCTCTACAGAAAGAAGTATTAGCAG                         AGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTA
genomic: GATTGATTACTCATCAGCCAATGCACCTCTACAGAAAGAAGTATTAGCAGgtaacatttt ... tgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccattttcaatctgtgattatttgcaccactgagttgatattttgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTATCACTGGTACTGTTCTATATGTTGACAATGGTCTGAATGCTATGGGTGT
                                  agttgat  putative branch site (score: 5)
                                          ttttgtctt  CT-rich tract
                                    ttgatatttt  TA-rich tract