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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtctccaagcttaatgcactaacaagtctatatagtatggtgaatatatgaaagtatgaaagtgcatatattaatatgattgtttgtgttggattataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCCTGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG

Basic information

species Glycine max
transcript GLYMA13G25890.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G25890.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g33900.1 (Oryza sativa), 3'ss of exon 1
gttagtctccaagcttaatgcactaacaagtctatatagta--tggtgaatatatgaaagtatgaaagtgcatatattaatatgattgtttgtgt-tggattataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCCTGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
    ||    | || ||    | |   |  | |||    |   |  | |  | |  |     |  |    ||   | | |   |    | ||| | |   |        ||||| ||||| ||||| ||||||||||| || ||| | ||| |||| || || ||||||||||| || |||||||||||||| || |||||||| || || 
----gtacgtacgcatacaaaaattggagatatatgctctgattttttagcacagtatttgctctattctcacgcactgaccggccaatgtgtatgtatgtccacgtgtagGCCGGTGATCGATCAGAATTTCTACTACGCCGGGCTCAAGTTCACCTCGCCGACCTTCTCCTGCGCCATGAGCAACATGCTCCCGGCCATGACCTTCGTC

upper sequence: GLYMA13G25890.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G136567_T02 (Zea mays), 3'ss of exon 1
gttagtctccaag-----cttaatgcactaacaagtctatatagtatgg-----tgaatatatgaaagtatgaaagtgcatatatta-atatgattgtttgtgttggattata-aaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCCTGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
||  ||   || |     |||  | |  |  | |||   |    | |       |   |     ||| | ||      |    |||  ||  |  | |  |  | |  |  |    ||||||| ||||| || || || |||||||| || ||| | ||| |||| || || ||||||||||| || |||||||||||||| || |||||||| || || 
gtgcgtgcacagggggggcttggttctgttccgagttattgcgctgttagtttcttgcttggcaaaactctgctctgactctgattgcatgcggctctgcgaatcgtttcgtgcgcacagGCCGGTGATCGACCAGAACTTCTACTACGCGGGGCTCAAGTTCACCTCGCCGACCTTCTCCTGCGCCATGAGCAACATGCTCCCCGCCATGACCTTCGTC

upper sequence: GLYMA13G25890.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0084g00090.t01 (Vitis vinifera), 3'ss of exon 2
gttagtctccaagcttaatgcac--taacaagtctatatagtatggtgaatatatgaaagtatgaaa---------gtgcatatatt-aatatgattgtt-tgtgttggattataa-aacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCCTGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
||||||||||    ||  |   |  |  |   |  ||  | ||| |  |||||    |   || ||          ||| | ||||| ||| ||||        ||| | ||  |   | ||||||||||| || || || || || |||||||| |||||||| || ||||| |||||||| || ||||||||||| |||||||| |||||||| || || 
gttagtctccttttttttttttccttttctttttcatgcattattgcaaatatgcagacacatcaatcaagctcttgtgtagatattcaatctgatcaaagcaagtttgtttggattgatagGCCTGTGATCGACCAGAACTTTTATTATGCTGGTTTGAAGCTGACTTCCCCGACCTTCTCATGCGCAATGAGCAATATGCTTCCGGCCATGACATTCGTC

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|151397034|gb|EV266907.1|EV266907
EST:     AAGATAACATTCCCAGTTTTCATGCAAATTTTTATCCTAGCTCTTCTTGG                         GCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC
genomic: AAGATAACATTCCCAGTTTTCATGCAAATTTTTATCCTAGCTCTTCTTGGgttagtctcc ... tataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaagtatgaaagtgcatatattaatatgattgtttgtgttggattataaaacagGCCTGTGATTGATCAAAATTTCTACTATGCTGGGTTGAAGCTCACATCCCCAACCTTCTCCTGTGCAATGAGCAACATGCTTCCAGCCATGACTTTTGTG
                   tattaat  putative branch site (score: 2)
                atatattaatatgatt  TA-rich tract