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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaatttctcttcttcttctttttcctaattcctgtattttagtcaattttatttacaatgttactattatacagTGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTGCTCTCGACACGTCACCTC

Basic information

species Arabidopsis thaliana
transcript AT1G23090.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G23090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G02080.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------gtttaatttctcttcttcttctttttcctaattc---ctgtattttagtcaattttatttaca---atgttactattatacagTGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTGCTCTCGACACGTCACCTC
                                                      |    | |||| |  ||  ||| |   ||||      || || ||   | | | ||  |||||   ||||   | |||||||||||||||||||||||||  |||||||  ||||||||||| |  |  | || |   || | ||| | 
gtaactcctttaacttttaagcagaaacacgcgagcacacagaatttgactgctggcacagttctttaatttgtctctagactaaaatggactctacttctat-attctttcttacaaaaatgtggtttttatacagTGGTCATGGCAAACAATATTGATGGGGATTTGCTTCTTGGTACTACTACTATTAGCAAGACACGTT

upper sequence: AT1G23090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G34360.1 (Glycine max), 3'ss of exon 4
---gtttaatttctcttcttcttctttttcctaattcctgtattttagtcaattttattt-----acaatgttac---------tattatacagTGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTGCTCTCGACACGTCACCTC
   | |   ||| | || || ||||||| | |  ||     | | ||||  | ||||||      | |||||||          | || | |||||||| |||||||||||  ||||||| |||||||||||| | || || ||     || | ||| | 
gttgctccttttttttttttattcttttccatttttttctcaatatagtatactttattctaaaaaaaatgttatgtgtggctttcttttgcagTGGTCGTGGCAAACAATATTGATGGGGGTTTGCTTCTTGGTGTTTTTACTGGTTGCAAGACACATT

upper sequence: AT1G23090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv01s0011g04980.t01 (Vitis vinifera), 3'ss of exon 4
----------------gtttaatttctcttcttcttctttttcctaat-tcctgtattttagtcaattttatttacaat----gttactattata--cagTGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTGCTCTCGACACGTCACCTC
                    ||  |   |  | | || |   || ||| |  | | | ||  |  ||||| |  | ||      ||  | ||||   |||||||||||||||||||| ||||||||  | |||||| |     |  | ||   | || | ||| | 
tggaggaaaacaagaaaacgaaaattagtgatgcatcatagaccaaatattttatttatttattgattttctgaaaaaatgaaattgatgttatgtgcagTGGTCATGGCAAACAATAGTGATGGGGTTCTGCTTCCTATCGCTGCTTCTGCTGGCAAGACACGTT

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|125243192|gb|EL257277.1|EL257277
EST:     GTGTAGTCCCTGTTCTCTCCTCTGTTTTCCAACACACCAACGAG                         TGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTG
genomic: GTGTAGTCCCTGTTCTCTCCTCTGTTTTCCAACACACCAACGAGgtttaatttc ... tattatacagTGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcctaattcctgtattttagtcaattttatttacaatgttactattatacagTGGTCATGGCAAACAATTGTGATGGGAGTTTGCTTCTTGCTCTTCTTGCTCTCGACACGTCACCTC
   tcctaat  putative branch site (score: 2)
               tattttagtcaatttt  TA-rich tract