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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG

Basic information

species Glycine max
transcript GLYMA20G01360.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 3
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttatt--attttctaattacagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                                         |  || | |||| | |||  ||  ||  |||  |   ||  |||    | | ||||  |        ||  |    ||     | ||||  |||||||  |  | || ||  ||||  | || || ||||| || || |||||||||||||| || |||||||| ||||||||||| |||
------------------------------------------------------gtttgtgaattgttgctaatttgatgatcagattg-atgctgcagttcatttaagttatggtggtattaagcaatattctac---cgcagATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAG

upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 4
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtt-tattattttctaattacagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                                   ||   |  |  || ||| || || |||  ||   | |  |||| || |     ||  |  || |   |    ||  |    ||  |    ||||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || |||||||||||||||||||| |||
-------------------------------------------------gtttgtaactaatttggttattatactatactcgtgtgat-gaatttgttggaggtctttagtaatggtttgaagcaatgtggtacctc---agATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG

upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 3
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                                ||  |||| | |  | | |  | || |||  ||   | |  |||| || |     ||  |  |||| |     ||        |        ||||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || |||||||||||||||||||| |||
-----------------------------------------------gtttgtaac-tgatttgattattatactatactcgtgtgat-gaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG

upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 4
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggtta-gactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                                           || | | ||| | |||||  |  | |  || ||||   ||  |       |  | | |     ||        |        ||||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| ||||||||||| |||
-----------------------------------------------------gtttgtagctgatttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatggtttgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG

upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggttagactcacttat---actcactcactgcgtttgc----ttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                                         || ||| | ||    || |||   |||||    ||| |  || ||||   ||||       ||   ||   |||||    |||| |||||||||| | ||||| |||||||||||  | || |||||||||||||| || || ||||| ||| |||| || ||||||||||| |||||||| |||
------------------------------------------------------gtttaggatca-ttcaccatcattg--taatttt--aatcttatt-gacttgtttattgtgtcaaccttctaaatttgcagtgttatctttgtagATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAG

upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                            |||  | ||   ||     | ||  ||||       || |||  |   | |  ||  | |  || | |||  |      |||| | || |  ||||||||| | ||||| ||||| |||||  | || |||||||||||||| || |||||||| ||| |||| || || ||||| |||||||| ||||||
-------------------------------------------gtttggtgtttctattgatattgtgatttag-----cctcattg-atggtctatttgaaatttct-aaacttgcaagtatcgttcggtttttcttgtagATTCTGCAACATATCTTACTTGATATTCCAAGTCTTGCTTTCTTCACTACATATGCGCTTCTGGTTCTCTTTTGGGCAGAGATTTACTACCAG

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|22523518|gb|BU082329.1|BU082329
EST:     GGTGTGTAGTTTTCATCTTCTATCGGAACGTGCAGAGGTTGAAGCCAGAG                         ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
genomic: GGTGTGTAGTTTTCATCTTCTATCGGAACGTGCAGAGGTTGAAGCCAGAGgtattcgagt ... atgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
EST: gi|213601102|gb|DB956452.1|DB956452
EST:     GGTGTGTAGTTTTCATCTTCTATCGGAACGTGCAGAGGTTGAAGCCAGAG                         ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
genomic: GGTGTGTAGTTTTCATCTTCTATCGGAACGTGCAGAGGTTGAAGCCAGAGgtattcgagt ... atgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
EST: gi|9820925|gb|BE556435.1|BE556435
EST:     GGTGTGTAGTTTTCATCTTCTATCGGAACGTGCAGAGGTTGAAGCCAGAG                         ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
genomic: GGTGTGTAGTTTTCATCTTCTATCGGAACGTGCAGAGGTTGAAGCCAGAGgtattcgagt ... atgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG
                                           ttatgttt  TA-rich tract