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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattctattactcctcctctttcgtctatttgaactaatgcttgaattttttattttatttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatagGGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTGATCCCCCGGATGCTTGTAGTTGACCCCATGAAACGAGTAACCATCCCTG

Basic information

species Arabidopsis thaliana
transcript AT3G01090.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G05700.1 (Glycine max), 3'ss of exon 5
gtacattctattactcctcctctttcgtctatttgaactaatgcttgaattttttattttatttttcgtatcacccttcgactgta-accttttttttttctcttttcgtcctatagGGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTGATCCCCCGGATGCTTGTAGTTGACCCCATGAAACGAGTAACCATCCCTG
          ||     | | | || | ||||    || |||  ||||  ||     |  |    ||   |    ||||   |||  ||||   |  || || ||||     ||||||| |||||||||||  | ||||| ||| |||| |||||||||||||||||||| ||  |||||||||| || || ||||||||  |  | ||||| ||||
----------ttggatttacccatt-gcctatccctac-aatcattgatgttaccggtaaacagatctagttttgcttctgatgtgtacctcactaattactatttt-----tatagGGTGGGATATACACTCTTCCTAGTCATCTATCACCTGGTGCTAGAGATTTGATACCAAGGATGCTTGTGGTGGATCCCATGAAGAGGATGACCATACCTG

upper sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 6
gtacattctattactcctcctctttcgtctatttgaactaatgcttgaattttttattttatttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatagGGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTGATCCCCCGGATGCTTGTAGTTGACCCCATGAAACGAGTAACCATCCCTG
     || || ||   ||    ||| |   ||  ||  |||| |   ||||      ||||||  ||  || |   |   |    ||   ||||||    | ||||  || | ||||| ||||| |||||  | || || ||| |||| || ||||||||||||||||| ||  |||||||||| |||||||| ||||   || | ||||| ||||
---tgttgtaatagatct----ttttgagaatcaga--taatcc--aaattg---gatttattcatcaaatgatgttatcatcaaaaagattttttcccatgtttt--tcatgtagGGTGGGATTTACACTCTTCCCAGTCATCTATCACCCGGTGCTAGAGATTTGATACCAGGGATGCTTGTGGTTGACCCTATGAGGAGAATGACCATACCTG

upper sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 3'ss of exon 5
gtacattctattactcctcctctttcgtctatttgaactaatgcttgaattttttattttatttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatagGGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTGATCCCCCGGATGCTTGTAGTTGACCCCATGAAACGAGTAACCATCCCTG
             ||| |   || |      |      ||     | |||  | |||| | ||| |   || |    |    | |   |  |        |   || ||  | ||||| |||||||| ||  | ||||| ||||||||  |||||||||||||| |||||||  |||||||  |||||||||| ||||| ||| | || || ||||
------------gctcttatcctataaagagtacattttatcctatcaatcatatattat-tttctgagattaaaaat---gtttgctccataaacccatttcatttgtattttagGGTGGGATATATACTCTTCCTAGTCATTTATCAACTGGTGCTAGAGATCTGATCCCAAGGATGCTCATAGTTGACCCTATGAAGCGAATGACAATTCCTG

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|86059932|gb|DR355689.1|DR355689
EST:     CGCTTCCATTTGATGATGAAAACATTCCCAACCTTTTTAAGAAGATAAAG                         GGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTG
genomic: CGCTTCCATTTGATGATGAAAACATTCCCAACCTTTTTAAGAAGATAAAGgtacattcta ... cgtcctatagGGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatagGGAGGGATATACACATTACCTAGCCATTTATCTCCTGGTGCTAGAGATTTGATCCCCCGGATGCTTGTAGTTGACCCCATGAAACGAGTAACCATCCCTG
                    ctgtaac  putative branch site (score: 3)
            cccttcgactgtaacc  CT-rich tract
                            ttttttttttctcttt  TA-rich tract