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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcggaagattttattctgagacaaatggtaaccccacatttatttcttttatcatatagtaaccccacttttctgattctcttttgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGA

Basic information

species Arabidopsis thaliana
transcript AT4G15570.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G15570.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os04g34670.1 (Oryza sativa), 3'ss of exon 7
gtaagtcggaagattttattctgagacaaatggtaaccccacatttatttcttttatcatatagtaaccccacttttctg-attctcttttgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGA
       | ||| || | | ||  |     || ||      |  | ||  || |    || | |||       |     | |  | | | |  || | ||||||| ||||| || | | | | ||| |||||  |    | |||  | |||||||||||||| ||||| |||||||||||||||||| ||||  ||||| 
-------gtaagcttctgtgctctgtactttgctatatttgccatgatgcctgtatgaattttgtatttttgttacatggtaaacacctgtcttgat-agAAACCTGAGGTCGTAAGTTCCAATCGCAAGTATCGGGCCCATGTCTTGGTCTGTGCTCCATCCAACTCAGCACTTGATGAGATTGTGCTGCGAGTTCTGC

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA05G25210.1 (Glycine max), 3'ss of exon 13
gtaagtcggaagattttattctgagacaaatggtaaccccacatttatttcttttatcatatagtaaccccacttttctgattctcttttgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGA
                                        | | || ||  ||||   | ||| || |     || ||| ||  |   |  ||  ||||||||| || |   | | | | | ||| |||||  |  || | || || || || || |||||||||||||| |||||||||||||||||| || || | |
-------------------------------------gttaaaattgttgattttgcaaaataatatc-----ttctctaatgatgggt--attatcagAAACCTGAAGCTCTAACTTCAAATCGTAAGTATCGTGTAAGAGTGCTAGTATGCGCCCCATCAAACTCTGCCCTTGATGAGATTGTGTTGAGGGTTTTCA

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G08230.1 (Glycine max), 3'ss of exon 11
gtaagtcggaagattttattctgagacaaatggtaaccccacatttatttcttttatcatatagtaaccccacttttctgattctcttttgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGA
       | |||   || |||   | | ||            | || ||  ||||   | ||| || |  |  | |  ||||    |||      ||||||||| || |   | | | | | ||| |||||  |  || | ||  | || || || |||||||||||||| |||||||||||||||||| || || | |
-------gtaagtactttttcgttggctaa------------aattgttgattttgcaaaataatatcttc--tctaatgatgggtttta-----tcagAAACCTGAAGCTATAACTTCAAATCGCAAGTATCGTGTAAGAGTGTTAGTATGCGCCCCATCAAACTCTGCCCTTGATGAGATTGTGTTGAGGGTTTTCA

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv19s0015g00460.t01 (Vitis vinifera), 3'ss of exon 9
gtaagtcggaagattttattctgagacaaatggtaaccccacatttatttcttttatcata-tagtaaccccacttttctgattctcttttgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGA
                                ||||  |      |   | ||||||  |  |  |        | |||||| |    | || | | |||||||| ||  | |||| | | ||||| || ||  |  |||| ||||| || |||||||||||||| ||||| |||||||||||||||||||| ||||| |
--------------------------------gtaagtctgaggcttgctattttatagtgctcatttggaggatcttctgacttagatatgttttgcagAAACCAGAAATAGTTACTTCCAGTCGTAAATATCGTGTACGGGTACTGGTATGTGCTCCATCAAATTCTGCGCTTGATGAGATTGTGTTGCGCCTTCTAA

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|116422174|gb|EG464766.1|EG464766
EST:     TGCCTGAAGATGGTGACGATGGGTTCTTTCCAACCTCAGGAAATGAATTG                         AAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTC
genomic: TGCCTGAAGATGGTGACGATGGGTTCTTTCCAACCTCAGGAAATGAATTGgtaagtcgga ... tgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttcttttatcatatagtaaccccacttttctgattctcttttgatgttcagAAACCGGAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGA
                       ccccacttttctgatt  CT-rich tract
       ttttatcatatagtaa  TA-rich tract