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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattacttgactgtctcatttatccctcttattatgctgttaattcatgaattctcataaaaggtttgttaacagAACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTACAGCAACAGAATTCGACCGCTTTTAGAATGGCCGAAATTTTAGAGGCAC

Basic information

species Arabidopsis thaliana
transcript AT3G01120.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G01120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G49660.1 (Glycine max), 3'ss of exon 7
gtaaattacttgactgtctcatttatccctcttattatgctgt--taattcatgaattctcataaaa-------ggtttgttaacagAACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTACAGCAACAGAATTCGACCGCTTTTAGAATGGCCGAAATTTTAGAGGCAC
|||| |   ||  || |     | | ||  | |   | | | |  |||||  | | |    |||| |         ||| |   ||||| ||||| |||||| ||||| |||||||||| ||  ||||||| ||||||||||| |||||||| || |   | || ||||||||| ||||||||||||
gtaagtgcttt--ctatagagctgagcctccatggaaggatatcgtaattggttattgtggataacatagtgccaatttttccgcagAATGCTGCATACCTATTCATCAGAGGCATGAAAACGCTGCATCTCCGTGTACAGCAGCAGAATTCAACAGGAATGAGGATGGCCGAACTTTTAGAGGCAC

upper sequence: AT3G01120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G37020.3 (Glycine max), 3'ss of exon 7
gtaaattacttgactgtctcatttatccctcttattatgctgt--taattcatgaattctcataaaagg-------tttgttaacagAACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTACAGCAACAGAATTCGACCGCTTTTAGAATGGCCGAAATTTTAGAGGCAC
|||| | | ||  || |       | ||  | |   | | | |  |||||  | | |     ||| | |       ||| ||  ||||| ||||| |||||| ||||| |||||||||| ||  ||||||| ||||||||||| |||||||| || |   | || |||||| || ||||||||||||
gtaagtgattt--ctatagggccgagcctccatggaaggatatcttaatttgttattgtggctaacatggtgccaatttctttgcagAATGCTGCATACCTATTCATCAGAGGCATGAAAACGCTGCATCTCCGTGTACAGCAGCAGAATTCAACAGGAATGAGGATGGCCAAACTTTTAGAGGCAC

upper sequence: AT3G01120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv14s0108g01110.t01 (Vitis vinifera), 3'ss of exon 7
-----gtaaattacttgactgtctcatttatccctct-----tattatgctgttaattcatgaattctcataaaaggtttgttaa------------cagAACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTACAGCAACAGAATTCGACCGCTTTTAGAATGGCCGAAATTTTAGAGGCAC
     ||  |  |  ||    ||| |||||| || ||     | |||||| | |    | |||||  | ||||   |||| ||||            ||||| || || || || ||||||||||||||||||||| |||||||||||||||||||||| ||||| || || || || |||||| | ||||||||||| |
ttgaagttgaagaactgtaaatcttatttattccactgcaagtcttatgcagcttgagcctgaatcataataacttgttttttaaatttatttttatcagAATGCCGCATATCTGATCATCCGAGGCATGAAGACACTGCATCTTCGTGTACAGCAACAAAATTCAACAGCATTGAGGATGGCCAAGATTTTAGAGGCCC

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|125287281|gb|EL301366.1|EL301366
EST:     TTTCAGAAATTCGCAATCTGCATCATGTGTTGGGAGGAACACTTAACCCA                         AACGCTGCGTACCTAATCATCCG
genomic: TTTCAGAAATTCGCAATCTGCATCATGTGTTGGGAGGAACACTTAACCCAgtaaattact ... ttgttaacagAACGCTGCGTACCTAATCATCCG
EST: gi|125056720|gb|EL126351.1|EL126351
EST:     TTTCAGAAATTCGCAATCTGCATCATGTGTTGGGAGGAACACTTAACCCA                         AACGCTGCGTACCTAAT
genomic: TTTCAGAAATTCGCAATCTGCATCATGTGTTGGGAGGAACACTTAACCCAgtaaattact ... ttgttaacagAACGCTGCGTACCTAAT
EST: gi|125236158|gb|EL250243.1|EL250243
EST:     TGTGTTGGGAGGAACACTTAACCCA                         AACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTA
genomic: TGTGTTGGGAGGAACACTTAACCCAgtaaattact ... ttgttaacagAACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatccctcttattatgctgttaattcatgaattctcataaaaggtttgttaacagAACGCTGCGTACCTAATCATCCGAGGCATGAAGACATTGCATCTTCGTGTACAGCAACAGAATTCGACCGCTTTTAGAATGGCCGAAATTTTAGAGGCAC
                 tgttaat  putative branch site (score: 3)
                   ttaattcatgaatt  TA-rich tract