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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttgcagacttgtaatttctctcttatttgcaagttgaatgcaactaatatggcagataacaaagaagcacaatgtgaaacatcttttggttttggggttagaagatgctgtttaaactcagtagttattatttccctcccctattgtcttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG

Basic information

species Glycine max
transcript GLYMA11G27870.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os03g18310.2 (Oryza sativa), 3'ss of exon 18
gtatgtttgcagacttgtaatttctctcttatttgcaagttgaatgcaactaatatggcagataacaaagaagcacaatgtga-aacatcttttggttttggggttagaagatgctgtttaaactcagtagttattatttccctcccctattgtcttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG
                                                       |  | | |   | |||| ||   | ||  |    |||   |||||    |  ||| || |        | |  ||  |||| | |       |   || | | || |||||| || |  ||||||||||| ||||||||||||||| | || || || ||| | ||||||||||||||
-----------------------------------------------------actacctgct--tagagaatcatcctctgctagtgccttactgttttata-tacgaaaatac--------ccccataagtattttatttacattcatgtgccctttttcagATCACGTAGCAAGGACAAGCTGAGGTATCGTTATCCTAGAGGAGAATCCTACCTCGATGTCATTCAAAG

upper sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 19
gtatgtttgcagacttgtaatttctctcttatttgcaagttgaatgcaactaatatggcagataacaaagaagcacaatgtgaaacatcttttggttttggggttagaagatgctgtttaaactcagtagttattatttccctcccctattgtcttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG
                                               |  || |||  |    || |||       | |  | ||  || |||  ||  || | |         |||||   || || |    | |||||   | |  |||     ||||||| || || |||||||||||||| |||||||| |||||||||||||| || ||| ||||||| || |||||
-----------------------------------------------agttattattaccc-caaaaaaatcatgtacttgggaatctcatttttttcaggagcttt----ccttgttt---cttagga----taatttcatcctcacatta----attgcagGTCACGTAAGAAGGACAAGCTGAGGTATCGGTATCCTCGTGGTGAATCTTACCTGGATGTTATCCAAAG
















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|51336524|gb|CO980390.1|CO980390
EST:     GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGA                         ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
genomic: GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAgtatgtttgc ... cttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
EST: gi|51336471|gb|CO980337.1|CO980337
EST:     GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGA                         ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
genomic: GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAgtatgtttgc ... cttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
EST: gi|9564592|gb|BE474101.1|BE474101
EST:     GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGA                         ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
genomic: GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAgtatgtttgc ... cttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
EST: gi|22930234|gb|BU547373.1|BU547373
EST:     GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGA                         ATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA
genomic: GATGGTATGACATACGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAgtatgtttgc ... cttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgctgtttaaactcagtagttattatttccctcccctattgtcttattgcagATCGCGCAAGAAGGACAAGCTTAGGTATCGTTATCCTCGTGGTGAGTCATACTTGGATGTCATTCAAAG
                         ttatttccctccccta  CT-rich tract
                 agtagttattattt  TA-rich tract