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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatttttctttctcttgacatacaattttctgacacgctgtggaaacctggaatctgtattgtttatgccgttttttcgcttggtaatttcgttcttttctgatggttacatacttacattactgaaaaacttaaacttcctctatcatgtgctttagGGTGTGGAAGCACAAACATTGGCTAATGTGTATTTGGCCTTGGAAAACAACCTCGAAATTATTCCC

Basic information

species Arabidopsis thaliana
transcript AT5G08650.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 4
gtgatttttctttctcttgacatacaattttctgacacgctgtggaaacctggaatctgtattgtttatgccgttttttcgcttggtaatttcgttcttttctgatggttacatacttacattactgaaaaacttaaacttcctctatcatgtgctttagGGTGTGGAAGCACAAACATTGGCTAATGTGTATTTGGCCTTGGAAAACAACCTCGAAATTATTCCC
                          | | |||   | ||| |     |||    ||  |  || || |   |  |||   | ||  |   |  |  |||  | ||  |    ||  | | ||    ||||| |     ||     ||||        |||| || |||||||||||| | |||||||| |||||||| ||||| |||||||| |||||||| || 
-----------------------gtgaatctct---atgcttttctgcccttctttccattctggttttatggcctttat-catgtgagggtgatcttttagtaat--tctggtatctgcttttgcaaaaaaatg----ttttcaaatcac-------agGGCGTTGAAGCACAAACACTAGCTAATGTTTATTTGGCTTTGGAGAACAACCTAGAAATTATCCCT

upper sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 4
gtgatttttctttctcttgacatacaattttctgacacgctgtggaaacctggaatctgtattgtttatgccgttttttcgcttggtaatttcgttcttttctgatggttacatacttacattactgaaaaacttaaacttcctctatcatgtgctttagGGTGTGGAAGCACAAACATTGGCTAATGTGTATTTGGCCTTGGAAAACAACCTCGAAATTATTCCC
                                ||| |   ||    || ||    ||  |  || || |   |  |||   | ||  |   |  |  | |  | ||  |    ||  | | || |  |||||||     ||     ||||        |||| || |||||||||||  | |||||||| |||||||| ||||| |||||||| |||||||| || 
-------------------------------gtga-atcttgatttaagctcttctccattctggttttatggcctttat-catgtgagggtgatcttgtagtaat--tctggtatctgcttttccaaaaaactg----ttttcaaatcac-------agGGCGTTGAAGCACAAACCCTAGCTAATGTTTATTTGGCTTTGGAGAACAACCTGGAAATTATCCCT
















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|124832438|gb|EH916877.1|EH916877
EST:     GATCTCTTGCTGCTTGCGAGGGTGCTCTTCTTGTTGTGGATGCATCCCAG                         GGTGTGGAAGCACAAACATTGGCTAATGTGTATTTGGCCTT
genomic: GATCTCTTGCTGCTTGCGAGGGTGCTCTTCTTGTTGTGGATGCATCCCAGgtgatttttc ... tgtgctttagGGTGTGGAAGCACAAACATTGGCTAATGTGTATTTGGCCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttacatacttacattactgaaaaacttaaacttcctctatcatgtgctttagGGTGTGGAAGCACAAACATTGGCTAATGTGTATTTGGCCTTGGAAAACAACCTCGAAATTATTCCC
        tacttac  putative branch site (score: 1)
                      aaaaacttaaactt  TA-rich tract