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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaatgccaagtacaacggtcgttatttcttcagtggggtctctttatttgaagtcgtttgatttgatcataatacactatcacagtgtcactggctatttaattttgcagGTTGAAAATGTGATTCACACTGGCCCAAAAAAATTGGTATTGTATTTCACGGGAGCCACCAACATTCTCTACACTTTCGGCGGGCACGCCGTCACAGT

Basic information

species Glycine max
transcript GLYMA02G42290.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G42290.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 5
----------------------gtaagcaatgccaagtacaacggtcgttatttcttcagtggggtctctttatttgaagtcgtttgatttgatcataatacactatcacagtgtcactggctatt-taattttgcagGTTGAAAATGTGATTCACACTGGCCCAAAAAAATTGGTATTGTATTTCACGGGAGCCACCAACATTCTCTACACTTTCGGCGGGCACGCCGTCACAGT
                      |         |    |||||   || ||   |    |   |  || ||||  ||  | || ||||   |    |    |  | ||   | | |   ||| | ||    |||| ||||||||||||||||  ||||| ||||| |  ||  ||||  |||||||||| || ||||||||||| ||||||||||||||||| ||||||||||| ||
gtattcttcattttttctttctgggtttttcactccttacaatcatccttcactggataaacgaatcactttcctttta-tcttttgtaatctcaacggaaagccattg-actttggatggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
















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|13789895|gb|BG652486.1|BG652486
EST:     CCACTTACACAGCTTGGTACATGACCATTGCAGCCATTGCTCATGGCCAG                         GTTGAAAATGTGATTCACACTGGCCCNNNNNNNTTGGTATTGTATTTCACG
genomic: CCACTTACACAGCTTGGTACATGACCATTGCAGCCATTGCTCATGGCCAGgtaagcaatg ... aattttgcagGTTGAAAATGTGATTCACACTGGCCCAAAAAAATTGGTATTGTATTTCACG
EST: gi|18733933|gb|BM527893.1|BM527893
EST:     CCACTTACACAGCTTGGTACATGACCATTGCAGCCATTGCTCATGGCCAG                         GTTGAAAATGTGATTCACACTGGCCCNNNNNNNNTTGGTATTGTATTTCAC
genomic: CCACTTACACAGCTTGGTACATGACCATTGCAGCCATTGCTCATGGCCAGgtaagcaatg ... aattttgcagGTTGAAAATGTGATTCACACTGGCCC-AAAAAAATTGGTATTGTATTTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgatttgatcataatacactatcacagtgtcactggctatttaattttgcagGTTGAAAATGTGATTCACACTGGCCCAAAAAAATTGGTATTGTATTTCACGGGAGCCACCAACATTCTCTACACTTTCGGCGGGCACGCCGTCACAGT
                                         atttaat  putative branch site (score: 4)
     atttgatcataata  TA-rich tract