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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctttgatctccatctggttttagtattttaggataaactgtgaagcaatgagattaatttcttgtcttccaattctgaacagTGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGCTCGTCTTAATGCCAAGATAAATGGAATACAAAATGCAACATTTGTCCAG

Basic information

species Glycine max
transcript GLYMA13G42890.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42890.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g09750.1 (Oryza sativa), 3'ss of exon 6
-------------------------------------------------------------------gtaatctttgatctccatctgg---ttttagtatt-----ttaggata---aactgtgaagcaatgagattaatttcttgtcttccaattctgaacagTGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGCTCGTCTTAATGCCAAGATAAATGGAATACAAAATGCAACATTTGTCCAG
                                                                    |  | |    |||           ||| || |||     || || ||   |  | |  |  |    ||||| |   |  |||||  ||| ||| ||| |  | |||||| ||||| ||||||||||||||| |||||||  ||||||||      || || ||| | ||||| ||    ||||| |||||||| |||
gtaaattttctcactattatcatgctgttggagagcagttgctactatgtgaggccattttttttcatttgtttcaagtcttagcacaaaactttgagcattcgtcattcggttacccatttattgaaaagcatgattagtagatgttcttctgatt-tgaccagGGCAAAGCATGTCTATGGATATGAAGTAGTTCCTGAAGCCATTGCAGATGCTAAAAAGAACGCTAAGCTGAATGGTATCAGCAATGCTACATTTGTTCAG

upper sequence: GLYMA13G42890.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g02670.t01 (Vitis vinifera), 3'ss of exon 7
gt-aatctttgatctccatctggttttagtattttaggataaactgtgaagcaatgagattaatttcttgtcttccaattctgaacagTGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGCTCGTCTTAATGCCAAGATAAATGGAATACAAAATGCAACATTTGTCCAG
|| ||| |||  |     |   ||||   || |||     || |||      ||||         |||||  |||  | | | | ||| || ||||||||||||||||||||||||||  |||||||  |  ||||||||||||  ||||||||| | ||||| ||    ||||| |||||| |  | 
gtgaatgttttgtaattgttcagtttagttaatttttatcaatctgactttgaatg-------cctcttgctttc--acttt-atcagGGTAAGGCATGTTTATGGCTATGAAGTAGTGGCTCAAGCTGTTTCAGATGCTCGTCGGAATGCCAAGCTGAATGGTATCTGTAATGCCACATTTATTGAA
















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|151405629|gb|EV275443.1|EV275443
EST:     CTTGACCTGTTTTGTGGAACAG-CACCATAG-TCTGACGCTTGCAAGAAG                         TGTTAG-CATGTTTATGGCTTATGAAGTAGTTCCTCAA-CCATCACAGATG
genomic: CTTGACCTGTTTTGTGGAACAGGCACCATAGGTCTGACGCTTGCAAGAAGgtaatctttg ... ttctgaacagTGTTAGGCATGTTTATGGCT-ATGAAGTAGTTCCTCAAGCCATCACAGATG
EST: gi|10234615|gb|BE803503.1|BE803503
EST:     CTTGACCTGTTTTGTGGAACAGGCACCATAGGTCTGACGCTTGCAAGAAG                         TGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGC
genomic: CTTGACCTGTTTTGTGGAACAGGCACCATAGGTCTGACGCTTGCAAGAAGgtaatctttg ... ttctgaacagTGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGC
EST: gi|18040955|gb|BM309249.1|BM309249
EST:     CTTGACCTGTTTTGTGGAACAGGCACCATAGGTCTGACGCTTGCAAGAAG                         TGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGC
genomic: CTTGACCTGTTTTGTGGAACAGGCACCATAGGTCTGACGCTTGCAAGAAGgtaatctttg ... ttctgaacagTGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaggataaactgtgaagcaatgagattaatttcttgtcttccaattctgaacagTGTTAGGCATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGCTCGTCTTAATGCCAAGATAAATGGAATACAAAATGCAACATTTGTCCAG
                        gattaat  putative branch site (score: 3)
                   aatgagattaattt  TA-rich tract