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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccttagaaaatttgcacaaaactttgggtcaaattagtttctgcagtgtttctataacctctgcttattgatttcttcagGATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTCTAGTGTTTGCAAACAAACAAGACATG

Basic information

species Arabidopsis thaliana
transcript AT3G03120.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G03120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G01380.2 (Glycine max), 3'ss of exon 5
--gtaccttagaaa--atttgcacaaaactttgggtcaaattagtttctgcagtgtttctataacctctgcttattgatttctt-cagGATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTCTAGTGTTTGCAAACAAACAAGACATG
   || | |  ||   | || || | | || |  ||     |  | |    |       |  ||  |  | | || |||| ||| |||   |||||||  |||||||| |||||||| ||||||||  | |||||||| |||||||||||| ||
gtataacatcaaattcactttcatatatctgtttgtgtgtgtgttattccaaacaaaatttgaa--ttggttcatggattacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCCAACAAACAAGACCTG

upper sequence: AT3G03120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S37_304V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------gtaccttagaa-----aatttgcacaaaactttgggtcaaattagtttctgcagtgtttctataacctctgctt-attgatttcttcagGATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTCTAGTGTTTGCAAACAAACAAGACATG
               |  |||   |     |  |||  ||| ||   |  |   |    ||    |||||  |||||      ||||| | |   |  | ||| | |||||||  || ||| | |||   ||||| |  ||||| ||||||||||||||||||||||||
ctctcgcaacgcgtatctcttgagagcaacagcttgttcaatac---gcattttacatattaaaacagtgactctattgtgcgtgcttcaatttgtgttgcagCAAATCATAAACGATCCACTGATGAGGAACAGCGCAATTCTTGTGTTTGCAAACAAACAAGACATG
















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|124732546|gb|EH823948.1|EH823948
EST:     TAGACTCCTTGGACCGAGAGAGGATTGGTAAAGCGAAGCAAGAATTTCAG                         GATATCATAAGGGACCCA
genomic: TAGACTCCTTGGACCGAGAGAGGATTGGTAAAGCGAAGCAAGAATTTCAGgtaccttaga ... atttcttcagGATATCATAAGGGACCCA
EST: gi|164201378|gb|EL968984.1|EL968984
EST:     GAGAGGATTGGTAAAGCGAAGCAAGAATTTCAG                         GATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTCTAGTGTTTGCA
genomic: GAGAGGATTGGTAAAGCGAAGCAAGAATTTCAGgtaccttaga ... atttcttcagGATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTCTAGTGTTTGCA
EST: gi|164222768|gb|ES035887.1|ES035887
EST:     TAGACTCCTTGGACCGAGAGAGGATTGGTAAAGCGAAGCAAGAATTTCAG                         GATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTC
genomic: TAGACTCCTTGGACCGAGAGAGGATTGGTAAAGCGAAGCAAGAATTTCAGgtaccttaga ... atttcttcagGATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtcaaattagtttctgcagtgtttctataacctctgcttattgatttcttcagGATATCATAAGGGACCCATTCATGCTCAACAGTGTCATTCTAGTGTTTGCAAACAAACAAGACATG
                                        tattgat  putative branch site (score: 3)
                                              tttcttc  CT-rich tract
     aaattagttt  TA-rich tract