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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatctcaatatatagtatgttctttttttggtaatgatgaatatatagtatgtcctgattgttgtgtttgagatgttactataattgcttattgataattttggctgtttctacagCTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAAATGATGAAGTCAAAAGCCATTTGCAG

Basic information

species Glycine max
transcript GLYMA20G32770.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G32770.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g22020.1 (Oryza sativa), 3'ss of exon 3
gtgagtatc-tcaatatatagtatgttctttttttggtaat---gatgaatatatagtatgtc--ctgattgttgtgtttga----gatgttacta--taattgcttattgataattttggctgtttctacagCTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAAATGATGAAGTCAAAAGCCATTTGCAG
|| |||  | |   |    |||     ||      |  ||     || |   |||  ||| ||  |  |  ||  || || |    | |  |||||  ||||| |    | || | |   | || || | |||  || || || ||||| ||| | ||||||||||| || ||||||||||| || || || ||||| ||||||||||||
gttagtgccattttttctcagtgacagctcgaccggacaaaccaaattacattatcctatatcaacaaacagtactgattaatctcgcttgtactagttaattacgagctaattagtcccg-tgcttatgcagTAGCGACGCCCAAGCAGATCCGGGAGCTGATGAAGGTGGATGGCCTCACCAACGACGAGGTCAAGAGCCATTTGCAG

upper sequence: GLYMA20G32770.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtatctcaatatatagtatgttctttttttggtaatgatgaatatatagtatgtcctgattgttgtgtttgagatgttactataattgcttattgataattttggctgtttctacagCTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAAATGATGAAGTCAAAAGCCATTTGCAG
||| |||| |  |  |  ||    || |  || | || |   |   |  | |  || |||       || | ||||  ||  | || | ||| ||  |  |  |      | || || ||| ||| || |||||||| ||||| || |||||||| |||||||| || || ||||||||||||||||||||||| |||
gtgtgtatat--acttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattga-attaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
















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|20812487|gb|BQ296965.1|BQ296965
EST:     CTTGCATAAGCGCTTCTTGCATGCCCTTCAGCAGCTTGGGGGTGCAGATT                         CTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAA
genomic: CTTGCATAAGCGCTTCTTGCATGCCCTTCAGCAGCTTGGGGGTGCAGATTgtgagtatct ... gtttctacagCTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtttgagatgttactataattgcttattgataattttggctgtttctacagCTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAAATGATGAAGTCAAAAGCCATTTGCAG
                            tattgat  putative branch site (score: 3)
                                           ctgtttct  putative PPT
              ttactataattgctta  TA-rich tract