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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatcctttaaactaattatgattccaattgggttttgaatggtttttgagttcagaattgggtgagttgtttgtgaattttgagtgttagattcaagtattcaactgggtatgtctgattttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCTTCGCTGTGGCACATGCATGAG

Basic information

species Glycine max
transcript GLYMA16G29790.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G29790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G25700.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagttatcctttaaactaattatgattccaattgggttttgaatggtttttgagttcagaattgggtgagttgtttgtgaattttgagtgttagattcaagtattcaactgggtatgtctgatt-ttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCTTCGCTGTGGCACATGCATGAG
                                                   |    |||| || |   |      |||     || ||| |  || |   ||   ||   ||| |  | |  |||| ||||||| ||||||||||| ||||| |||||||||||||| ||||| ||||| ||||| || ||| | |||||||||
--------------------------------------------------gtaagtttcaaaacttcatcc-caattt-----ttctgattcataaacaaaaaagtttggctgagatttttggattattcagGTTGGTATGGAATTCTGGGCAAGATGGGCTCATAGAGCTCTGTGGCACGCTTCTCTATGGAATATGCATGAG

upper sequence: GLYMA16G29790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G52570.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagttatcctttaaactaattatgattccaattgggttttgaatggtttttgagttcagaattgggtgagttgtttgtgaattttgagtgttagattcaagtattcaactgggtatgtctgattttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCTTCGCTGTGGCACATGCATGAG
                         ||    ||    |||   |||               ||  |    |      |||  ||  | | |    ||||||  |||  |  |  |||| | ||| ||| |||| || ||||| |||||||| |||||||||||||| ||||| ||||||| |||  | ||| |||||||||||
-------------------------gaaaaaaacgaagttc--aataaccagaacaagttaaaccgtaaaaagccaatgtccatgcttatt--ccgattcatttat--attttcgtatatttgaattttagGTTGGGATGGAGTTTTGGGCAAGATGGGCTCATAGAGCTCTTTGGCATGATTCTTTATGGAACATGCATGAG
















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|41146249|gb|CK606460.1|CK606460
EST:     TGCCTTGGTCTGAAATGTTTGGCACATTTGCTCTATCAGTGGGAGCTGCT                         GTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCT
genomic: TGCCTTGGTCTGAAATGTTTGGCACATTTGCTCTATCAGTGGGAGCTGCTgtgagttatc ... tgattttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCT
EST: gi|10256359|gb|BE824125.1|BE824125
EST:     TGCCTTGGNCTGAAATGTTTGGCACATTTGCTCTATCAGTGGGAGCTGCT                         GTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCT
genomic: TGCCTTGGTCTGAAATGTTTGGCACATTTGCTCTATCAGTGGGAGCTGCTgtgagttatc ... tgattttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCT
EST: gi|31471135|gb|CD413163.1|CD413163
EST:     CTTGGTCTGAAATGTTTGGCACATTTGCTCTATCAGTGGGAGCTGCT                         GTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCT
genomic: CTTGGTCTGAAATGTTTGGCACATTTGCTCTATCAGTGGGAGCTGCTgtgagttatc ... tgattttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgaattttgagtgttagattcaagtattcaactgggtatgtctgattttcagGTGGGTATGGAATTTTGGGCTAGATGGGCTCATAGGGCTCTCTGGCATGCTTCGCTGTGGCACATGCATGAG
                                          gtctgat  putative branch site (score: 4)
                                                ttttc  CT-rich tract
     aattttga  TA-rich tract