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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtctagtgatattgcttaatgattatgtctatttcttttagtcatttagtgttggttaggatgcttcttacacataattgttgatgctgaatcaaacagGTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCAATTCGGGGTACCTTTGGCTATCTTGACCCTGAGTATATATCCTCAGGGA

Basic information

species Glycine max
transcript GLYMA13G36140.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G36140.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G54590.2 (Arabidopsis thaliana), 3'ss of exon 5
tgtctagtgatattgcttaatgattatgtcta-tttcttttagtcatttagtgttggttaggatgcttcttacacataattgttgatgctgaatcaaa-cagGTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCAA---TTCGGGGTACCTTTGGCTATCTTGACCCTGAGTATATATCCTCAGGGA
                    | |  || |||  ||||| || |  || |   ||   ||      | ||       |||| || |||  |   | |   ||||||||||| ||||| ||||| |||||||| ||||| || |||||||| || |   |  | || || |||||||| || || || || || || ||  ||    
-------------------gtaaacatatcttctttctctttgaaatctca-gtctattgaaccacctcaagtttctaatggt-gatcttctttaacttcagGTTGCTGACTTTGGCCTCTCCAGAGAAGAAATGGTAGACAAACATGCAGCTAACATCAGAGGAACATTTGGCTACCTCGATCCCGAATACATTTCAACAA---

upper sequence: GLYMA13G36140.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 5
tgtctagtgatattgcttaatg---attatgtctatttcttttagtcatttagtgttggttaggatgctt---cttacacataattgttgatgctgaatcaaacagGTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGC---TGCAATTCGGGGTACCTTTGGCTATCTTGACCCTGAGTATATATCCTCAGGGA
     | | | |||   | |||   | |     ||    | ||| |  | |  | | |  |      | |   ||   |||   ||||||  | ||  | |||||||||||||||||||| || || || |||||||||||    ||||||||   |   || || || || ||||| |||||||| ||||||||| ||||  ||    
----aaataaaattatctgatgtggactgaaaatagaggtcttaattgtgttttttcgtattaagcacctaggctcttacaatcttgttg--gatgtttaaaacagGTTGCTGATTTTGGGCTTTCGAGGGAAGAGATGGTTAGCAAACATGCATCTAATATACGAGGAACTTTTGGATATCTTGATCCTGAGTATGTATCAACAA---
















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|18709588|gb|BM522441.1|BM522441
EST:     GAGATATCAAATCTTCTAACATTCTCTTGGACCAGTCCATGCGAGCCAGG                         GTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCA
genomic: GAGATATCAAATCTTCTAACATTCTCTTGGACCAGTCCATGCGAGCCAGGgtatgtcatt ... aatcaaacagGTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCA
EST: gi|8286475|gb|BE024043.1|BE024043
EST:     GAGATATCAAATCTTCTAACATTCTCTTGGACCAGTCCATGCGAGCCAGG                         GTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCA
genomic: GAGATATCAAATCTTCTAACATTCTCTTGGACCAGTCCATGCGAGCCAGGgtatgtcatt ... aatcaaacagGTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagtgttggttaggatgcttcttacacataattgttgatgctgaatcaaacagGTTGCTGATTTTGGACTCTCAAGAGAAGAGATGGTGGATAAACATGCTGCAATTCGGGGTACCTTTGGCTATCTTGACCCTGAGTATATATCCTCAGGGA
                             ataattgtt  TA-rich tract