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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatttgttacaattcattttaactttaaaagatattagttgaaccaaaccatatgattggagtttgatatgactatgtgtgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGATGATTCCACACCCGTTGTTACAACTG

Basic information

species Arabidopsis thaliana
transcript AT1G76730.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G76730.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G27960.1 (Glycine max), 3'ss of exon 3
gtgagatttgttacaattcattt--taactttaaaagatattagttga--accaaaccatatgattggagtttgatatgactatgtg--------tgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGATGATTCCACACCCGTTGTTACAACTG
|| |  |     | | || ||||   |  |     |  | ||| |  |  | || ||  |    ||| |  ||  |   |||| | |        ||||||| ||||| ||||| |||||||| ||| || | |||||||||||||| |||||||| ||||  ||||||||| |||
gtaatgtacaaaatagttaatttagcagatgagtgaatttttaatctattaacagactttgaacttgaatgttccttcaactaagaggattgaagtgcagGGATTTGCAGAACTTGAATATGGTATGCTGAGGTACATGGGAGCCATCGATGATTCAACACGAGTTGTTACATCTG

upper sequence: AT1G76730.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G08860.1 (Glycine max), 3'ss of exon 4
-------------------------gtgagatttgttacaattcattttaact--ttaaaagatattagttg---aaccaaaccatatgattggagtttgatatgactatgtg--------tgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGATGATTCCACACCCGTTGTTACAACTG
                           |  || |   |  | | | |||| |   |      |  |||  |    ||    ||  |    | | | |||  |   |||| | |        |||||||  |||| ||||| |||||||| ||| || | |||||||||||||| |||||||| ||||| ||||||||  |||
gtgttgggttgacattgtataccaatagtaatgtacaaatagttaatttagcagatgggcgaactttaaatctataaatggactttgaactcgaattttccttcaactaagaggattgaagtgcagGGAATTGCAGAACTTGAATATGGTATGCTGAGGTACATGGGAGCCATCGATGATTCAACACCAGTTGTTACCTCTG

upper sequence: AT1G76730.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0072g00300.t01 (Vitis vinifera), 3'ss of exon 3
------gtgagatttgttacaatt--cattttaactttaaaagatattagttgaaccaaaccatatga-----ttggagtttgatatgactatgtgtgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGATGATTCCACACCCGTTGTTACAACTG
       ||| || |  |    ||   | |    |||  || | | | | || | ||      || ||      |||| ||||  ||| || ||  | ||||| ||||| ||||| |||||||| |||||||| |||||||||||||| |||||  | || ||  |||| ||  | |
actatcttgacatctacttgtgttgttactgcttcttagaatggtttcactttaccctgtttttaagaatttactggaatttgtcatgtctctgctt-cagGGGTTTGCAGAACTTGAATATGGGATGTTGCGGTACATGGGAGCCATAGATGACACTACTCCTATTGTCACCTCAG

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|164124709|gb|ES144404.1|ES144404
EST:     TTAGGGAAAGGAGAG                         GGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGAT
genomic: TTAGGGAAAGGAGAGgtgagatttg ... atgtgtgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGAT
EST: gi|164174179|gb|ES179786.1|ES179786
EST:     GGAAAGGAGAG                         GG-TTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGAT
genomic: GGAAAGGAGAGgtgagatttg ... atgtgtgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGAT
EST: gi|86079362|gb|DR375119.1|DR375119
EST:     GCTCTGTTGCGGTTAACCCACAAACGGGTGCTCGATTAGGGAAAGGAGAG                         GGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGAT
genomic: GCTCTGTTGCGGTTAACCCACAAACGGGTGCTCGATTAGGGAAAGGAGAGgtgagatttg ... atgtgtgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGAT
EST: gi|164127704|gb|ES149334.1|ES149334
EST:     CTCGATTAGGGAAAGGAGAG                         GGTTTTGCGGAACTCGAATATGGAATGGTTGCGTTACATGGGAGCCATTGA
genomic: CTCGATTAGGGAAAGGAGAGgtgagatttg ... atgtgtgcagGGTTTTGCGGAACTCGAATATGGAAT-GTTGCGTTACATGGGAGCCATTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatattagttgaaccaaaccatatgattggagtttgatatgactatgtgtgcagGGTTTTGCGGAACTCGAATATGGAATGTTGCGTTACATGGGAGCCATTGATGATTCCACACCCGTTGTTACAACTG
                                gtttgat  putative branch site (score: 5)
                     atatgatt  TA-rich tract