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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatataccattgagatatgggtttaatacatacaagcttttcgtttacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttgtgatacaataatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG

Basic information

species Arabidopsis thaliana
transcript AT5G26780.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 7
gttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatataccattgagatatgggtttaatacatacaa-gcttttcgtttacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttg--tgatacaataattt---gcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG
                                                                              | ||  ||  |   ||||| ||  |   | |    || | |  |  ||   |||  | |  ||  | |  | |  ||  ||||    || ||     ||| | || || |||||||| ||||| || || ||  | || ||||||||||||||||| ||||| ||||| ||||||||||  || || || |||
------------------------------------------------------------------------------attatctaggatatttttcattgcctcatatctctttcaattgtgaaattatttcaagatgaatttctgctgacatgcttgatttgctacttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCAAGTGCATATGCGCGTCTTTATGACTATGACCGCATGCGGAAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 7
gttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatataccattgagatatgggtttaatacatacaagcttttcgtttacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttg--tgatacaataatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG
                                                                   |||  ||| |||    || ||  ||| |  |  |  || |   | | | | |        |||   | ||     | || |   |||  | ||  |||| || |||| | || || ||||| || ||||| || || ||| | || ||||| ||||| |||||||||||||| || ||||| ||||||||| |||| |||
-------------------------------------------------------------------gatgaggggttag---attcacacttatt-tgcaaagtccccctttcatgcatactgttggttg--agactgttctataatagcttgacttatttaata-ttcgcagTTGGAGAAAAGTGCAGTACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
gttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatataccattgagatatgggtttaatacatacaagcttttcgtt-tacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttgtgatacaataatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG
                                                                || |||  ||| |||    || ||  |||| |    | |   | | |||   | |  | |   ||  |||   | | | ||  || | ||   ||  |||| |  |||| | || || ||||| |  ||||| || || ||| | || ||||| ||||| |||||||||||||| || ||||| ||||||||| |||| |||
----------------------------------------------------------------tgtgatgaggggttag---attcacactttgcaaagtccccctttcatgcatactgttggttgagactttc--ctataattgcttgactt---atttaata-tccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 7
gttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatataccattgagatatgggtttaatacatacaagcttttcgtttacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttgtgatacaataatt---tgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG
                                                                     |     |||  |  ||| |||  ||   |||| |  |      | ||  || | ||      | |||  |||||| | || | ||  ||| ||  |||   ||||| | || || ||||| |  || |||||||| ||||| |||||||| || |||||||| ||||| ||||| ||||| ||||||||||| || |||
--------------------------------------------------------------------tttccaattttgtttata-aagagttgactttatgcct-----atcaaacaaataaaataaaataaaatgaaagttgactt-tgtgaaataaaaatattcattgcagTTGGAGAAAAGTGCTGCCCTCTTCAGACCAAAACTAATTGTTGCTGGCGCAAGTGCCTATGCACGTCTTTATGATTATGCACGTATCCGCAAG

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|164132738|gb|ES016421.1|ES016421
EST:     TTGGATGAGAACACTGGTTACATTGATTATGACCAG                         CTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCA
genomic: TTGGATGAGAACACTGGTTACATTGATTATGACCAGgttggttagt ... taatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCA
EST: gi|164152189|gb|EL994062.1|EL994062
EST:     TTGGATGAGAACACTGGTTACATTGATTATGACCAG                         CTAGAAAAGNGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCA
genomic: TTGGATGAGAACACTGGTTACATTGATTATGACCAGgttggttagt ... taatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattgaacagtttttaaaccaaagtttatttatttgtgatacaataatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG
                     aaagtttatttatttg  TA-rich tract