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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccttgattggaactagtatcttgttatatactacatttgaattgtacgagaggctgagttttaattgtttcattttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGAGAGACAG

Basic information

species Arabidopsis thaliana
transcript AT5G62650.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G62650.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G29580.1 (Glycine max), 3'ss of exon 3
-----gtatgccttgattggaactagtatctt---gttatatactacatttgaattgtacgagaggctgagttttaatt-----gtttcattttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGAGAGACAG
     ||   |  | || | |  |  ||| ||    || | |  ||| |||  ||  |  |      | | || ||| |      || ||| |    ||||| ||||||||||| || |||||||||||||||||||  |||
tggatgtccccaattatggaatttgatattttaatattctttcttacgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG

upper sequence: AT5G62650.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G24090.1 (Glycine max), 3'ss of exon 3
-----gtatgccttgattggaactagtatctt---gttatatactacatttgaattgtacgagaggctgagttttaatt-----gtttcattttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGAGAGACAG
     ||   |  |  | | |  |  |||  |    || | |  ||| |||  ||     |      | | || ||| |      || ||       ||||| ||||||||||| || |||||||||||||||||||  |||
tggatgtccccaattgtggaatttgatatgctaatattctttcttacttttatatctcttgcttaatttatttataaattgtgcattacaccccatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG

upper sequence: AT5G62650.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv16s0050g01470.t01 (Vitis vinifera), 3'ss of exon 3
-------gtatgccttgattggaactagtatcttgttatata-ctacatttgaattgtacgagaggctgagtttta-attgttt--cattttc--ctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGAGAGACAG
       | | |  |          |  ||| |||||   |  |||  || |   | |      | || | ||  | |||||||  ||| | |   |||||| |||||||||||||| | ||||||||||||||||| ||||
ttatttagaaggtttcctgaactttttatattttgttgggtttctatcttggttcttttttctggactaacttacacattgtttgccatgtgcaattcagGAAAAACCTCACTTATTCCGGTTTGTTCCAAATGAGAAACAG

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|164016322|gb|EL992985.1|EL992985
EST:     GTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAG                         GAGAAACCTCACTTATTTCAGTTTGTTCCAAATGA
genomic: GTGGAGTGGTTGGGGCTTGTCGACTTGATTTGGCATATGAGCATTTCAAGgtatgccttg ... ttttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactacatttgaattgtacgagaggctgagttttaattgtttcattttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGAGAGACAG
                               ttttaat  putative branch site (score: 3)
                                     ttgtttcattttcctc  CT-rich tract
                               ttttaattgtttcatt  TA-rich tract