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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggatttggcttttatcattaattggaaggggacagagaatgtttgtttaagcttttcagtgtttgctcaaatgttttgttttgtggatagcatattatttttttgttaattaatgcttcttattgtaatttatgtttttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACTCCATTATCTTTGGGTCTGGAAACTCTAGGTGGTGTGATGACAAAAATTA

Basic information

species Glycine max
transcript GLYMA16G00410.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G00410.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g03310.t01 (Vitis vinifera), 3'ss of exon 6
gtgggatttggcttttatcattaattggaaggggacagagaatgtttgtttaagcttttcagtgtttgctcaaatgttttgttttgtggatagcatattatttttttgttaattaatgcttcttattgtaatttatgtttttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACTCCATTATCTTTGGGTCTGGAAACTCTAGGTGGTGTGATGACAAAAATTA
                                       |  |  |   |  || ||||  ||  || ||  |    |  || |  || | || |  | | | |     ||||      |   | ||    || |||    ||||||||||| ||| ||||||||||||| ||||||||||| ||||||||  ||||||| ||| ||||||| || ||  | |||||||| ||||||||||| |
---------------------------------------gtgttgtaaatgtagtttttgggtagtttctggagaaatg-gtatgatgtacagaacctcactgtga-actaatcgtctatgtgttttccggttgatg---ctagGCTGGTGTTTTGTCTGGAGATGTCAGTGACATTGTGCTCTTGGATGTGTCTCCATTGTCTCTGGGTCTAGAGACATTGGGTGGTGTAATGACAAAAATCA

upper sequence: GLYMA16G00410.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S6_146V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------gtgggatttggcttttatcattaat-tggaaggggacagagaatgtttgtttaagcttttcagtgtttgctcaaa---tgtttt----gttttgtggatagcatattatttttttgttaattaatgcttcttattgtaatttatgtttttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACTCCATTATCTTTGGGTCTGGAAACTCTAGGTGGTGTGATGACAAAAATTA
                   |      |    | | |||  | | |||| ||  |  | |  |  ||  |||  | |    | |  |   |  |   ||||||    || |  || || || ||| ||     | ||   || |     || | | || |||    |  |||||||||| |||||||| || |||||||||||||| ||  ||||||| || ||  | ||||||||| |||| ||  | |||||||||||||| || ||||
gtttgaaattttacctcgatacctactcatctctgtcacgagtatggatggctaaggggtttagtttgttattcctaatggggggtatcctgaggttgttttagtagtctgatgaatggcttatcatcgacattttctgtattaacaattgtgggaaattac---tacagGCTGGTGTTTTGGCTGGTGAAGTCAGCGACATTGTTCTTCTGGATGTGACGCCTCTGTCTTTGGGTTTGGAGACGTTGGGTGGTGTGATGACGAAGATTA

upper sequence: GLYMA16G00410.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ32911 (Selaginella moellendorffii), 3'ss of exon 7
gtgggatttggcttttatcattaattggaaggggacagagaatgtttgtttaagcttttcagtgtttgctcaaatgttttgttttgtggatagcatattatttttttgttaattaatgcttcttattgtaatttatgtt--tttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACTCCATTATCTTTGGGTCTGGAAACTCTAGGTGGTGTGATGACAAAAATTA
                                                                                    | ||  |  || |||   |    |  ||  |||| |  ||||  |  |||   ||  ||||||||||  |  ||||||| || |||||| |  | |||||  |||| || ||  || | ||  |||||||||||||||| |||||||| ||||||||  | |
-----------------------------------------------------------------------------------gtatgattctcacatt---taaaagagaaagaatggtatttatctttcttttccttcgtttagGCTGGCATTCTGGCTGGCGAAGTCAGCAAGGTGGTGCTACTGGACGTGACCTCACTGTCGCTGGGTCTGGAAACTCTGGGTGGTGTCATGACAAAGGTCA

upper sequence: GLYMA16G00410.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ15775 (Selaginella moellendorffii), 3'ss of exon 6
gtgggatttggcttttatcattaattggaaggggacagagaatgtttgtttaagcttttcagtgtttgctcaaatgttttgttttgtggatagcatattatttttttgttaattaatgcttcttattgtaatttatgtt--tttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACTCCATTATCTTTGGGTCTGGAAACTCTAGGTGGTGTGATGACAAAAATTA
                                                                                    | ||  |  || |||   |    |  ||  | || |  ||||  |  |||   ||  ||||||||||  |  ||||||| || |||||| |  | |||||  |||| || ||  || | ||  |||||||||||||||| |||||||| ||||||||  | |
-----------------------------------------------------------------------------------gtatgattctcacatt---tgaaagagaaagagtggtatttatctttcttttccttcgtttagGCTGGCATTCTGGCTGGCGAAGTCAGCAAGGTGGTGCTACTGGACGTGACCTCACTGTCGCTGGGTCTGGAAACTCTGGGTGGTGTCATGACAAAGGTCA

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|208291753|gb|GE093295.1|GE093295
EST:     ATGTCACTGTCAATCCAGATGAAGTGGTTGCCCTTGGAGCTGCTGTACAG                         GCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACT
genomic: ATGTCACTGTCAATCCAGATGAAGTGGTTGCCCTTGGAGCTGCTGTTCAGgtgggatttg ... atgtttttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACT
EST: gi|193375951|gb|FK342162.1|FK342162
EST:     ATGTCACTGTCAATCCAGATGAAGTGGTTGCCCTTGGAGCTGCTGTTCAG                         GCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACT
genomic: ATGTCACTGTCAATCCAGATGAAGTGGTTGCCCTTGGAGCTGCTGTTCAGgtgggatttg ... atgtttttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagcatattatttttttgttaattaatgcttcttattgtaatttatgtttttagGCTGGTGTCTTGGCTGGAGATGTCAGCGACATTGTGCTGTTGGATGTCACTCCATTATCTTTGGGTCTGGAAACTCTAGGTGGTGTGATGACAAAAATTA
                     aattaat  putative branch site (score: 3)
                                              tgttttt  putative PPT
     atattatttttttgtt  TA-rich tract