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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctttaatcttacaaataatgtgtctttccaagtttatgttactctttataatgctcaagttttgtaatttgatttctttgatatctattttcagTTATAATGCCACCATCAGCCCTTGATCGTCTAG

Basic information

species Arabidopsis thaliana
transcript AT4G38930.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38930.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G037185_T01 (Zea mays), 3'ss of exon 3
gtaagtctttaatcttacaaataatgtgtctttccaagtttatgttactctttataatgctcaagttttgtaatttgatttctttgatatctattttcagTTATAATGCCACCATCAGCCCTTGATCGTCTAG
||| ||  |   |      | |  || |    |||   | ||| ||| |    ||     |  |  |||  |   | |||  |||| |   | ||| |||||||||||||||||||||| ||||||||||| |
gtatgttctctgttccctgagttctgagc---tccgtatctattttagttgccat-----tggaagtttacaggattattattttgct---tctttccagTTATAATGCCACCATCAGCTCTTGATCGTCTTG

upper sequence: AT4G38930.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G34630.2 (Glycine max), 3'ss of exon 4
gtaagtctttaatcttacaaataatgtgtctttccaagtttatgttactctttataatgctcaagttttgtaatttgatttctttgatatctattttcagTTATAATGCCACCATCAGCCCTTGATCGTCTAG
|||||| |  |    |  |     | |   |||   | | ||  || || |||       ||   | |   ||||  |||  | |  |     | ||||||||| ||||| |||||||||||||| |||||||
gtaagtttccatgtctgtaccagttcttgtttttagaatataattttctatttgcccctgtctgatgtcaaaattaaattcttgttgt-----tcttcagTTATCATGCCTCCATCAGCCCTTGACCGTCTAG
















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|86059107|gb|DR354864.1|DR354864
EST:     CCTCAAATTGAAAGTGGTGACAAGA                         TTATAATGCCACCATCAGCCCTTGATCGTCTAG
genomic: CCTCAAATTGAAAGTGGTGACAAGAgtaagtcttt ... ctattttcagTTATAATGCCACCATCAGCCCTTGATCGTCTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactctttataatgctcaagttttgtaatttgatttctttgatatctattttcagTTATAATGCCACCATCAGCCCTTGATCGTCTAG
                                    ctttgat  putative branch site (score: 5)
                                            tctattttc  CT-rich tract
                         taatttgatttctttg  TA-rich tract