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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattaaataaaccccctcttgtgcttctactcattctgattgaatcagcactgtgttactgtaagctagaacttgcagttaaaccttacttatctaaaattaatcagGGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATGCCTCAGCATCACATATTGCCAACTTGTTGTCAACAGAGCCAGC

Basic information

species Glycine max
transcript GLYMA08G22420.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatattaaataaaccccctcttgtgcttctactcattctgattgaatcagcactgtgtta-ctgtaagctagaacttgcagttaaaccttacttatctaaaattaatcagGGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATGCCTCAGCATCACATATTGCCAACTTGTTGTCAACAGAGCCAGC
           |||   |  |  | | | | |    | |   |  ||||||   || ||||  || |||  ||  ||| | |  | ||  |||    |    |  ||||||||||||||  | || ||| |||| ||||||||||  ||||||| ||| ||||||||||||||||| ||||||||||| ||| | |||||  | || |||||
----------gtaagatcagttctct-catttgaaaacttcaa--gaatca-ttctttgttgtctctaaagtaatactagaaactgaa--ttaacggtagttacgtaatcagGGTTTGACGTTGGGGAAATTTCTGAAGATGGTCATGATGATTTGGAAGGTTTAGATGCCTCAGCTTCACATATTGCTAACCTTTTGTCCTCTGAACCAGC

upper sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------gtaatattaa-ataaaccccctcttgtgcttctactcattctgattg-aatcagc-----------actgtgttactgtaagctag-aacttgcagttaaaccttacttatctaaaattaatcagGGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATGCCTCAGCATCACATATTGCCAACTTGTTGTCAACAGAGCCAGC
                             | |   || | |  ||  |  | || | | |||        | |||  |  ||||           ||| |  |||||| |  |   |||   ||  | ||   | ||||| | |   || |||||||||||| ||||||| |||||||| ||||||||||| |||| ||| ||||||||||| |||||| |||| ||||| |||||||||||||| || || ||
gtaagattaatttccatttgcttttagatgaagggttgatactaattcttttttatccatctcaaagccataattacagccagcttcttttgcttactataatactgtgaattgataaccatcatctcaa--gtgcttatgtgatgata-tcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC
















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|14011490|gb|BG726412.1|BG726412
EST:     TGCTCCTACCCGTCCTGTAACCATACTTGGTGGTTTTTCTTGCACTGCAT                         GGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAG
genomic: TGCTCCTACCCGTCCTGTAACCATACTTGGTGGTTTTTCTTGCACTGCATgtaatattaa ... aattaatcagGGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttactgtaagctagaacttgcagttaaaccttacttatctaaaattaatcagGGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATGCCTCAGCATCACATATTGCCAACTTGTTGTCAACAGAGCCAGC
                                       atctaaa  putative branch site (score: 3)
                                 ttacttatctaaaatt  TA-rich tract