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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA

Basic information

species Glycine max
transcript GLYMA20G25120.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 14
gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
  |  |  ||    |      |    |||| |      |||  | |  |     |||| |||   |   |  |  |   | || ||||  |||  || | ||||| || || ||||| |||||||| |||||||||||||| ||||||||| |||||||||| || ||||||||  | ||  || |  |||||||||
--gtggttactgaatcttttgacaagataaat------gttacactgcttcatctatggtttaagaacactca--tggtttttgttct--gttgcagTTGAATCGACTTGTGACAGAAAAGTGGGTAGATGGGTGGGATGACCCTCGTTTGTTGACACTAGCAGGATTGCGGCGACGTGGAGTGTCATCAACTGCAA

upper sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 14
gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttg---ttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
                | | |  |       |||| |||   ||| || |  ||||||||     ||    |   |  ||| |||   |||   ||  ||||||||   || || |||||||||||||| ||||||||||||||||||||  || ||||||| || ||  | ||||| |||||  |  |  |||| ||||
----------------gtatagcgctgattcttgtggagaattat-atcaatcttatgatccttgatata-tggttctataatatggattggatttgcagCTAAATAAACTTGTGACAGAGAAGTGGGTAGATGGGTGGGATGATCCTCGCCTGTTGACACTTGCAGGACTACGGCGGAGAGGAGTATCATCAACAGCAA

upper sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 14
----------------gtgaagcaacaattttg-cacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
                || || | |  |  |     | |||  ||    ||||  | | |||||| |    | | || |   | | | |    || | |  |  | || |  || | ||||| || || |||||||||||||| ||||||||||||||||| || ||| ||||||| |||||| | |||||  | ||  |  |  |||||||||
gtatatatgttactgagttaaacgaggagatcaattctatgctatttgatgttatgatgtattatcaataatttcatatcatagttcatttgaacttgtgttgttctgctgcagTTGAATCGACTTGTGACAGAGAAGTGGGTAGATGGGTGGGATGATCCCCGCTTGTTGACACTGGCTGGTCTCCGGCGACGGGGAGTATCATCAACTGCAA

upper sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 13
-------------------gtgaagcaa---caattttgcacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
                   |  || | |   || || |  || || | ||   || |   ||   || | ||   | ||    |          ||||   | || |    || |  || | ||||| || || |||||||| ||||| ||||||||||||||||| || ||| ||||||| |||||  | |||||  | ||  |  |  |||| ||||
gtatatatatgttactaaagccaaacgagaccagttctatactatttgatg--ttatgacgtataatcaataatttaataccatttttcatttgaacttgttgttttgtggtgctgcagTTGAATCGACTTGTGACAGAGAACTGGGTAGATGGGTGGGATGATCCCCGCTTGTTGACACTGGCTGGACTCCGGCGGCGGGGAGTATCATCAACCGCAA

upper sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 15
gtgaagcaaca-attttgcaca-atgta---ataatttgttgagttctattattatgcttatgatttgccattccc--taactaca--tattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
||||  |||   ||||  |||   || |   | |  |||   |  | ||||    ||| |   | |     || ||  |   |     ||  ||| ||  ||  || | || ||| | || ||||| | |||||||||||| |||||||| |||||| | |||||| |||||||||| || ||||||||  ||||  | ||  | |
gtgagccaaagtatttaacacttgtgcatgaaaagcttgaaaacatgtattcccttgcatgcaaatgtttttttccattgtttgtgactagcattgttgtttgtagTTGAACCGTTTGGTGACAGAAAGGTGGGTTGATGGTTGGGATGACCCTCGTCTTATGACATTAGCTGGTTTACGACGTAGAGGGGTGACTTCGACCTCCA

upper sequence: GLYMA20G25120.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
||||    |     ||| ||| | ||   ||     |  |   | ||   |  || || ||     ||| |  | |   | | ||    ||||  || | || || || || ||||| |||||||||||||| ||||||||||||||| | |||||| ||||||||||||| ||||| ||  ||||  ||||  |||
gtgagctgatg-cattgaaca-tctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacatattgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA

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|33389687|gb|CA852894.1|CA852894
EST:     GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
EST: gi|151409608|gb|EV279416.1|EV279416
EST:     GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGGATGATCCTCG
genomic: GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGG-ATGATCCTCG
EST: gi|5753691|gb|AI960978.1|AI960978
EST:     GGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: GGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattattatgcttatgatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACCCCAACTGCAA
                          ccctaac  putative branch site (score: 2)
                                       ttattcttt  putative PPT
                                 tacatattattctttg  TA-rich tract