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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagttaaatagtcttcccaagtcccaaattattattattattattaatgcgttctcaattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC

Basic information

species Glycine max
transcript GLYMA06G14970.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
gtaagagttaaat--------agtcttcccaagtcccaaattattattattattattaatgcgttct----------caattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
|| ||| | || |        | ||| || || |    || |  | || ||  |   |   || ||           | | || |||||| |  ||||||| | |||||  | || || ||||| || ||  |||| || || ||||| || || ||||| |||||||| |||||||| ||||| ||||||||||| ||||
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC

upper sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 6
lower sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagagttaaatagtcttcccaagtcccaaattattattattattattaatgcgttctcaattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
|| ||| | ||  | | |              |  | ||||||  |  ||     ||  |||      |||  |  | ||||| | |||||  |  | |||||||| || ||| | || || || ||||| ||||| || || ||||||||||||||||| ||||| ||||||||||| ||||
gtgagaatgaagcaatatatgtggaat---ggtcttcattattgcttcta-catatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC

upper sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 3'ss of exon 7
gtaagagttaaatagtcttcccaagtcccaaattattattattattattaatgcgttctcaattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
|| ||  || ||   ||  |  |    ||   || || || ||  |     | || || ||  | ||  | | ||||||||||||||||||  |||| |||||| | |||||| |||| |||||||| || || || ||||| ||||| |||||||| || |||||||||||||| || || |
gtgagcatttaaagatccactaa----ccgcttttttcttcttcatgaattttcggtccca--tcttattctgtgcattgcagGTTTTCATTGTTCTATCCTGCTTGATCTCTGTCTCAGTCAATTTTAGCACCTTTCTTGTGATTGGCAAGACATCGCCCGTCACCTATCAGGTCCTGGGGC

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|21677608|gb|BQ629959.1|BQ629959
EST:     TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACG                         GTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG
genomic: TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACGgtaagagtta ... tgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG
EST: gi|208244135|gb|GE042488.1|GE042488
EST:     TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACG                         GTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG
genomic: TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACGgtaagagtta ... tgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG
EST: gi|16348409|gb|BI974004.1|BI974004
EST:     TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACG                         GTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG
genomic: TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACGgtaagagtta ... tgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG
EST: gi|8403988|gb|BE059622.1|BE059622
EST:     TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACG                         GTTTTCATAATTCTTTCCTGCCTTATCT
genomic: TTTTGACCAACCAAAATGTATTTGGTTTCAATTATACGACACAAGTGACGgtaagagtta ... tgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCT
EST: gi|254314908|gb|GR829901.1|GR829901
EST:     TATACGACACAAGTGACG                         G-TTTCATAA-TCTTTCCTGCC-TATCTCTATCTCGGTCAATTTCAGTACG
genomic: TATACGACACAAGTGACGgtaagagtta ... tgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaattattattattattattaatgcgttctcaattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
                 tattaat  putative branch site (score: 2)
                                  ttgtttctttctgc  putative PPT
     tattattattattatt  TA-rich tract