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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgattagcttattatttttgaagtgaaactatccatcagtcaccatttacatttactgccatatattagatactttgatctgttgtgaatgattcttccctctcttctgctggttcagTTGGTCAATCGCTTTCCACGAGGCCAGATATCATTGGGACTGAAATCTCCAAG

Basic information

species Arabidopsis thaliana
transcript AT2G39190.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G39190.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G31940.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------gtctgtgattagcttattatttttgaagtga-------aa---ctatccatcagtcaccatttacatttactgccatatattagatactttgatctg-ttgtgaatga--ttcttccctctcttc---tgctggttcagTTGGTCAATCGCTTTCCACGAGGCCAGATATCATTGGGACTGAAATCTCCAAG
                                                      |   | |||   |||| ||  || |  |||       ||   ||||   |     |  | ||       ||  ||| | |   || |  | |   | || | |||    || || | |   ||    ||||| | |||||||||| || |||||||| |||||||||||||||||   ||| || ||||||
gtgcggatttgaatctatttgagatcttaatatgattgttaaaataaattattattcatcatttaattatcatgctttagatgacttttgtaattcctattgctttaaaaaaaattgttggggctttcatttctctcatgcagtcacaagattatcaatatccttgttacattcatttgattgctgatgcagTTGGTCAGTCCCTTTCCACAAGGCCAGATATCATTGGTGTTGAGATGTCCAAG

upper sequence: AT2G39190.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G35610.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------gtctgtgattagcttattatttttgaagtga-------aa---ctatccatcagtcaccatttacatttactgccatatattagatactttgatctg-ttgtgaatga--ttcttccctctcttc---tgctggttcagTTGGTCAATCGCTTTCCACGAGGCCAGATATCATTGGGACTGAAATCTCCAAG
                                                      |   | |||   |||| |   || |  |||       ||   ||||   |     |  | ||       ||  ||| | |   || |  | |   | || | |||    || || | |   ||    ||||| | |||||||||| || |||||||| |||||||||||||||||   ||| || ||||||
gtgaggatttgaatctatttgacatcttaatatgattgttaaaataaactcttattcatcatttaattatcacactttagatgacttttgtaattcctattgctttaaaaaaaattgttggggctttcatttctctcatgcagtcacaagattatcaatatccttgttacattcatttgattgctgatgcagTTGGTCAGTCCCTTTCCACAAGGCCAGATATCATTGGTGTTGAGATGTCCAAG
















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|86060102|gb|DR355859.1|DR355859
EST:     GATGGTGTTGAAAGAAACCATGCTACATTTGGGCCCAACTTTTATCAAAG                         TTGGTCAATCGCTTTCCACGAGGCCAGATATCATTGGGACTGAAATCTCCA
genomic: GATGGTGTTGAAAGAAACCATGCTACATTTGGGCCCAACTTTTATCAAAGgtctgtgatt ... gctggttcagTTGGTCAATCGCTTTCCACGAGGCCAGATATCATTGGGACTGAAATCTCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattagatactttgatctgttgtgaatgattcttccctctcttctgctggttcagTTGGTCAATCGCTTTCCACGAGGCCAGATATCATTGGGACTGAAATCTCCAAG
         ctttgat  putative branch site (score: 5)
                             ttcttccctctcttct  putative PPT
      atacttt  TA-rich tract