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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagaccatataataatccctgttagctcatttccgtattgtggaagagatactttccaagcgtccattatcagattcgttagttattgatcatttcggctttcttatttttctttcatatcttggatctttcagTTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAGGGAATTAGCTCTTGAGTCAGGGGTAGAGAACTGGGGACGGGTACCCGCG

Basic information

species Arabidopsis thaliana
transcript AT5G26030.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G26030.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G047095_T04 (Zea mays), 3'ss of exon 9
gtgagagaccatataataatccctgttagctcatttccgtattgtggaaga-gatactttccaagcgtccattatcagattcgttagttattgatcatttcggctttcttatttttctttcatatcttggatctttcagTTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAGGGAATTAGCTCTTGAGTCAGGGGTAGAGAACTGGGGACGGGTACCCGCG
                            ||  ||| |  |||  | | |   | |    ||       |  | |  |||||   | | | ||| | ||    | | |  | |    | || ||  |  | ||    ||| |||||||| ||||||||||||||||| || || |||||||||||||| | ||| || ||||| || |||||  | ||||||||||| ||||| || || 
----------------------------gcaaattgcgatatgctagtatctggtttactctgtttacctgtca--agattatgttgctgttgttaat----gatgtaatgtgagccatttatgac--gaata---cagCTTCGTGAGCGAGCACATTGAGACACTGGAAGAAATAGACATGGAGTACAAGGAGTTGGCTCTGGAATCAGGCATTGAGAACTGGGGCCGGGTCCCTGCT

upper sequence: AT5G26030.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G05320.1 (Glycine max), 3'ss of exon 8
----gtgagagaccatataataatccctgttagctcatttccgtattgtggaagagatactttccaagcgtccattatcagattcgttagttattgatcatttcggctttcttatttttctttcatatcttggatctttcagTTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAGGGAATTAGCTCTTGAGTCAGGGGTAGAGAACTGGGGACGGGTACCCGCG
     | |      ||||  ||  |    | |  | | |||   |  || | | |   | |||  |   || | |||   |  | |  |||| |  ||      |   ||   | |  ||||   | |||||  ||   |||||| ||||||||||| ||||| || ||||| || || ||||||||||| | |||||| |||||||| || ||  |  |||| |||| ||| ||||| || 
gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttata---gtacgttacttg--ttgcaagttgtgaatatcccagagattaaaagtaatcttgtct-tcttgtgtcc--cagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
















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|125021502|gb|EL093771.1|EL093771
EST:     TTGGTAAGAGTGGTGTTAAGAGTCTACTAGCCGTTCCAGTCAG                         TTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAG
genomic: TTGGTAAGAGTGGTGTTAAGAGTCTACTAGCCGTTCCAGTCAGgtgagagacc ... gatctttcagTTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttattgatcatttcggctttcttatttttctttcatatcttggatctttcagTTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAGGGAATTAGCTCTTGAGTCAGGGGTAGAGAACTGGGGACGGGTACCCGCG
    tattgat  putative branch site (score: 3)
                                               tctttc  putative PPT
                    tttcttatttttcttt  TA-rich tract