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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttactttggtttcagttcaaacccaacaagctaaaatttacgtcattttcctaatatgagctatacatatgcagGAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTACTGTTGCTCGCTACGAGACACCTGCACATACAGATATTGACAAG

Basic information

species Glycine max
transcript GLYMA20G34110.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G34110.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G379002_T01 (Zea mays), 3'ss of exon 11
---------gtagttactttggtttcagttcaaacccaacaagctaaaatttacgtcattttcctaatatgagctatacatatgcagGAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTACTGTTGCTCGCTACGAGACACCTGCACATACAGATATTGACAAG
              | |     |     |            | |   ||| |   |  | |  ||   || | || |  | || ||||||||| || || ||||| |   | |||||||| ||||| |||| |||||| || || ||||| || || ||||||||||| || |||||||||
gtattgctttcccctccccctatcatgatgtccttgttcttatcctgaatgtgtattgtctcactcccattacctgtggacattcagGAAGATTCAGTCGGTTTTCGGATTATCTGATGGATCTGGCTTGGCTGTTACCGTAGCACGCTATGAAACTCCTGCACATACCGACATTGACAAG

upper sequence: GLYMA20G34110.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv05s0077g00060.t01 (Vitis vinifera), 3'ss of exon 12
gtagttactttggtttcagttcaaacccaacaagctaaaatttacgt-cattttcctaatatgagctatacatat--gcagGAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTACTGTTGCTCGCTACGAGACACCTGCACATACAGATATTGACAAG
|||  ||||||    || ||   |  |  | |   |   || || |      |    |  |    || |   | |   ||| |||||||| || ||||||||||| || ||||| || || ||||  ||||| || ||||| || ||||||||||| || |  ||||||||||||
gtatctacttttccctctgtagcatgcatagattttctgatatatgcatgcctaagaagcactgtctgtctttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTACAGTAGCTCGTTATGAGACACCTGCTCACATTGATATTGACAAG
















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|151398652|gb|EV268523.1|EV268523
EST:     AAAGATAATAAACGAGCCATATTGTTTGGAGAGCCAACATTTGGAAAAGG                         GAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTAC
genomic: AAAGATAATAAACGAGCCGTATTGTTTGGAGAGCCAACATTTGGAAAAGGgtagttactt ... acatatgcagGAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacccaacaagctaaaatttacgtcattttcctaatatgagctatacatatgcagGAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTACTGTTGCTCGCTACGAGACACCTGCACATACAGATATTGACAAG
                             tcctaat  putative branch site (score: 2)
            taaaattta  TA-rich tract