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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtacatttttaccttctggttagaagcttctcattgcatcttgtactgtaacagcacattcttttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGGTTTGATCACCATTGCCGG

Basic information

species Arabidopsis thaliana
transcript AT2G33640.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G010011_T02 (Zea mays), 3'ss of exon 5
------------------gtatagtacatttttaccttctggttagaagcttctcattgcatcttgtactgta-acagcacattcttttct----tgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGGTTTGATCACCATTGCCGG
                  ||  | |  || |||     |  | ||  | |      ||  |     ||||     |||  |  | | |  |    |  |||| || |    ||||||||||||||||||||| | ||||||||| |||||||||||||| || ||||||
tctttgtattaattttcagtgcactttatgtttggacacatggtatcaacacaaagttttaatcgatactaagtgcagttccctttgtattgtgatacagGTGCGCAAACATAGCAAGCACTGTCGAAGTTGCGACAAGTGTGTTGATGGGTTTGATCATCACTGCCGG

upper sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G01720.1 (Glycine max), 3'ss of exon 4
---------------gtatagtacatttttaccttctggttaga--agcttctcattgcatcttgtactgtaacagcacattcttt------tcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGGTTTGATCACCATTGCCGG
               ||  |  |  ||| |  | | |  |||    | |     |||| |     |  ||||    ||  || ||       | ||| |||| |  | |||||| ||||| ||||||||||||| ||| ||||| ||||| |||||||||||||| |||
attttaaaatatctagttgaagagttttctttcctttccttacctcaccagagtattgaaaaccatgatgtatttacatctttttaattatattttgcagGTGCAGAAGTTTAGTAAGCATTGTCGAAGTTGTGACAAATGTGTTGATGGATTTGATCACCATTGTCGG

upper sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G01810.1 (Glycine max), 3'ss of exon 6
-------------------gtatagtacatttttaccttctggttagaagcttctcattg---catcttgtact-gtaacagcacattcttttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGGTTTGATCACCATTGCCGG
                   || |  |    |||      ||    ||||  |    |      |||  |||| |   | |     | |  | | ||| |||| || | ||| || ||||| ||||||||||||| ||| ||||| ||||| |||||||||||||| |||
taaaatatctagttgaagagttttctttcctttccttgcctcaccagaatatggaaaaaaaaccatgatgtatttacatctttttagttatattttgcagGTTCGGAAGTTCAGTAAGCATTGTCGAAGTTGTGACAAATGTGTTGATGGATTTGATCACCATTGTCGG

upper sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ33542 (Selaginella moellendorffii), 3'ss of exon 3
gtatagtacatttttaccttctggttagaagcttctcattgcatcttgtactgtaacagcacattcttttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGGTTTGATCACCATTGCCGG
            |||   ||||       ||  | ||     |  |||   ||  |       ||  | ||  | |||| | || ||| |||||||| |||||||| ||||  |||||||| ||||| || ||||||||||| || 
-----------gtttgagttctttccgtgagtatgtcg----acattgatttgataagtttggtttatctcacgcagGTTCATAAGTTCAGCAAGCATTGTCGAAGCTGTGATAAGTGTGTTGATGGATTCGATCACCATTGTCGT

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|116401160|gb|EG443752.1|EG443752
EST:     AATCAAACGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAG                         GTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGG
genomic: AATCAAACGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAGgtatagtaca ... tttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGG
EST: gi|116400803|gb|EG443395.1|EG443395
EST:     AATCAAACGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCCATGCTGAG                         GTACGTATGTTTAGCA-GCACTG
genomic: AATCAAACGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAGgtatagtaca ... tttcttgaagGTACGTATGTTTAGCAAGCACTG
EST: gi|116401153|gb|EG443745.1|EG443745
EST:     CGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAG                         GCACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGG
genomic: CGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAGgtatagtaca ... tttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGG
EST: gi|116400801|gb|EG443393.1|EG443393
EST:     AATCAAACGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAG                         GTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGG
genomic: AATCAAACGAACAAGAAGAAGCTTTGTTCTGCTCATTGTGCAATGCTGAGgtatagtaca ... tttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttagaagcttctcattgcatcttgtactgtaacagcacattcttttcttgaagGTACGTATGTTTAGCAAGCACTGTCGAAGTTGTGGCAAGTGTGTAGATGGGTTTGATCACCATTGCCGG
                            ctgtaac  putative branch site (score: 3)
                                     cacattcttttctt  putative PPT
                                        attctttt  TA-rich tract