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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgctgtattggaatattttctttttgtgattattggaattgattgataatttattcagtttagtagggtttaatgaactgtgctgtaatatatattttaatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTACAGTCAATGCATGATATCAATCAAAATTTCCCTAACATAGTTTCTTCTTT

Basic information

species Glycine max
transcript GLYMA08G20020.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G370162_T02 (Zea mays), 3'ss of exon 6
----------------------------------------------------------gtattgctgtattggaatattttctttttgtgattattggaattgattgataatttattcagtttagtagggtttaatgaactgtgctgtaatatatat-tttaatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTACAGTCAATGCATGATATCAATCAAAATTTCCCTAACATAGTTTCTTCTTT
                                                          || |||    |  | |||   |  ||||| |  | || ||||   ||||  | |  ||    ||  |||   || ||  | || |    |       ||  |  | |  |||||||| || ||||| || | |||| |||| || |  || || || ||| ||||||||||||| || ||||||||||||||||| |  |||||||||||  |
gtattgttgcctacttgccataaatcgataggtgttcctcaggtttatatcatattttgttttgtccaacagcaatgcatcattttttttgt-atgggaa--aattgtgagtgcatc--attctgtattattaaagcacctttttcatttatggcatgctccacaccacagATCTGGGTCATCAGACAGCACAGCGAATCGTTCAAGCATCAGACCCTTTACAGTCAATGCAGGAAATCAATCAAAATTTCCCAAGTATAGTTTCTTCACT

upper sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G71220.1 (Arabidopsis thaliana), 3'ss of exon 6
gtattgctgtattggaatattttctttttgtgattattggaattgattgataatttattcagtttagtagggtttaatgaactgtgctgtaatatatattttaatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTACAGTCAATGCATGATATCAATCAAAATTTCCCTAACATAGTTTCTTCTTT
                                       | | |  |  ||  ||      ||||| |||   ||  |  | |||    |||| ||   |||  |  ||||||| |||| || ||||| |  ||||||||||||| ||||||||||||||| ||||| ||||| || || |||||||| || ||||   |||||||||| ||
---------------------------------------gtactactgcatgtttcgcgtggtttaatagaaattggtatagtgtttcctaatttac-ctttgttccaacagATTTAGGACACCAAACAGCGCAGAGAATAGTCCATGCCTCTGATCCTCTGCAGTCTATGCAAGAAATTAATCAAAACTTTCCTAGTGTAGTTTCTTCATT

upper sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------gtattgctgtattggaatattttctttttgtgattattggaattgattgataatttattcagtttagtagggtttaatgaactgtgctgtaatatat-attttaatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTACAGTCAATGCATGATATCAATCAAAATTTCCCTAACATAGTTTCTTCTTT
                         | |     ||| |    ||   ||||||| | ||||||   |||    ||  | |||  | ||| |    || ||  |||||   | |     || ||     | |||||||| |||| |||||||||| |||||| ||||| | ||||||||||||||| ||||||||||| || ||||| |||||||||||||   |||||||||| ||
gtatttatcatgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtcatgaaaattatctgatttggattaattat-ttaaaataactgaaatttgcctaatgatgactttttaacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT

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|207766421|gb|GD736509.1|GD736509
EST:     TCTATTGTCATCAACTGTATCAGATACACTTGATGTTTGGGAATTAAAGG                         ATCTAGGGCATCAAACTGTACGGAGAATAGTCCGTGCCTCTGATCCTCTAC
genomic: TCTATTGTCATCAACTGTATCAGATACACTTGATGTTTGGGAATTAAAGGgtattgctgt ... aatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagtttagtagggtttaatgaactgtgctgtaatatatattttaatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTACAGTCAATGCATGATATCAATCAAAATTTCCCTAACATAGTTTCTTCTTT
                                         ttttaat  putative branch site (score: 3)
                         tgtgctgtaatatata  TA-rich tract