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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtgttgtatgggatggctttgtaattcacaattttgcgtctacttattatagtctatagaataacttgctattttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATATGTTGTGATTCTTATGCTACATATGCTTACGACTTTGTGTTTGAGAACA

Basic information

species Glycine max
transcript GLYMA12G09540.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G09540.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G141735_T01 (Zea mays), 3'ss of exon 8
gtaagtgtgttgtatgggatggctttgtaattcacaattttgcgtctacttattat-agtctatagaataacttgctattttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATATGTTGTGATTCTTATGCTACATATGCTTACGACTTTGTGTTTGAGAACA
||||||   |  | |   ||   | |  | || | |   | |  | ||  |||    ||| | ||    |       ||  |  | |||||||| || ||||| || || || || ||||||||||| ||||||||||| || |||||||| | ||| || ||||| || ||||||| |||||   | |
gtaagtagttaatct---attcatgttcacttta-atcctagtatatatgtatagccagtttgtaatgcattc----atccttctacagTATGGGCATTTCTTCCCTGACCCTCAATATGAAAATGTGCAACACATCATCTGCTGTGATTCATTTGCCACTTATGCATATGACTTTGAGTTTGCCCATA

upper sequence: GLYMA12G09540.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G27460.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtgtgttgtatggga--tggctttgtaattcacaattttgcgtctacttattatagtctatagaataacttgcta--ttttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATATGTTGTGATTCTTATGCTACATATGCTTACGACTTTGTGTTTGAGAACA
||| |||  ||   ||  |   |    |  |  | |  |||||   | |  || || |  |   |    ||||    ||   ||  ||||||| ||||||||||||||||||||||||||| || ||  |||| || ||||| || |||||||| ||||| |||||||| || |||||||  ||||   | |
gtatgtggttttagtgaaaaccgaaagttcagataatgattttttttttttttttttttttgcttcagctaacagtttagccttacttgcagTTTGGTCACTTCTTTCCAGATCCACAGTACGAGAACCTTCAGCATATCATCTGCTGTGATTCATATGCAACATATGCATATGACTTTGAATTTGCAGATA

upper sequence: GLYMA12G09540.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0080g00510.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtgtgttgtatgggatggctttgtaattcacaattttgcgtc-tacttattatagtctatagaataacttgc--tattttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATATGTTGTGATTCTTATGCTACATATGCTTACGACTTTGTGTTTGAGAACA
|| ||||  |  |||    |  ||||   |||  ||    || ||   ||||  | || | || |     |||| |  ||  || |||||||||||||| ||||| |||||||||||||| |||||||| |||||||| || ||||||||||||||||  |||||||| ||||| ||||  ||||  ||||
gtgagtg-atcatatcatgtc-ctttaagattgtcatagctgtgttacactttgtttattttacatttacacttacattaaatttttgcagTATGGTCATTTCTTCCCAGATCCACAGTACGAAAATGTGCAACACATTATTTGTTGTGATTCTTATGTCACATATGCCTACGATTTTGATTTTGCCAACA

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|208080918|gb|GD873802.1|GD873802
EST:     GTTGTGTCCTGCGGTTAAGAACCTCGACTGAATTTAAACCTGGCAATTCT                         TATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATA
genomic: GTTGTGTCCTGCGGTTAAGAACCTCGACTGAATTTAAACCTGGCAATTCTgtaagtgtgt ... tttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATA
EST: gi|16996632|gb|BM086004.1|BM086004
EST:     GTTGTGTCCTGCGGTTAAGAACCTCGACTGAATTTAAACCTGGCAATTCT                         TATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATA
genomic: GTTGTGTCCTGCGGTTAAGAACCTCGACTGAATTTAAACCTGGCAATTCTgtaagtgtgt ... tttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaattttgcgtctacttattatagtctatagaataacttgctattttattgcagTATGGTCACTTCTTTCCAGATCCACAGTATGAAAATGTTCAACACATCATATGTTGTGATTCTTATGCTACATATGCTTACGACTTTGTGTTTGAGAACA
                               gaataac  putative branch site (score: 2)
                                         ctatttt  putative PPT
                ttattatagtctatag  TA-rich tract