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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatcttattgcccctatttcttgcttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT

Basic information

species Glycine max
transcript GLYMA08G42170.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 2
gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatcttattgcccctatttcttgcttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
                               |     ||  |    | |    |   | |||  |  | | |  ||   |   |      | | | || || ||  |       |||  ||| ||      |||||| || ||||| || || |||||||| ||||| |||||||||||||| || || ||||| |||||||| ||  | || || ||||| || || ||  | 
------------------------------gtaagagatcctgaaatctattctgcgttttacagaacttgtgactccttctgatgccatcatattaattttcttttg------atatggtgctg------cagGGGCCAGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATC

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatctt-attgcccctatttcttgcttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
                      |  | ||    | | || |    ||||  |||| |||||  |      | | |  || | |||| | ||   || |       |  ||||   || ||  | ||  ||   ||||| || ||||| ||||||||||| |||||||| |||||||||||||||||  ||||||| ||| | || ||  |  | || ||||| || || || || 
---------------------gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaa-------ctgtgatcatattat-cgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatcttattgcccctatttcttgcttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
                                 |    |||| |  | | |  ||||||  ||      |  | |||||||         |||||  ||||| |   | | | |  |     ||   |    |||||||| || ||||| |||||| |||| ||||| ||||||||||| |||||  | || || ||||||||| |  | || || |||||| |||| || |||
--------------------------------gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgctt---------cctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatcttattgcccctatttcttgcttgaacaatgacct---ttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
                                                |     |      |  || |||  |      ||  |  |||   |   |  || ||| |   ||| ||||| |||   ||  ||||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||||| | |||||||||||||| ||| |  | || |||||| ||||||| |||
-----------------------------------------------gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
                         ccttgat  putative branch site (score: 5)
                                   ataatgt  TA-rich tract