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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaatcacttttgcatgattttttcatggcgattgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtagATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAATGATGAAGTTCCTTGTGATCTTGTTTTGCTTGGTACCTCTGATCCACAAG

Basic information

species Arabidopsis thaliana
transcript AT5G44240.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G37090.1 (Glycine max), 3'ss of exon 2
---------gtatgaatcacttttgcatgat----tttttcatggcgattgatttt-taggtggtgatagtttgtgttaattgtagtagtatgttgcttgtagATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAATGATGAAGTTCCTTGTGATCTTGTTTTGCTTGGTACCTCTGATCCACAAG
          ||| | | |   ||  ||| |    | ||  ||  |  |  || |  |   |  |  | | | | | | ||||   | ||  | |  ||| |||| ||||| ||||| || || || || ||||| || ||| | ||||| ||||||||||| |||||||| ||||||||| |||| ||||||||||| ||||
acacaagctttatcatttaaaattatatggtgtgctcttctatatctgtaaatctaatgattttttctgggtgggggtgattgccttggt--gata-ttgcagATACAAGCCCAGGATATTCATGTAGGTAATATAGTATGGCTACGTGAAAATGATGAAGTGCCTTGTGACCTTGTTTTGATTGGCACCTCTGATCCTCAAG

upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G33340.1 (Glycine max), 3'ss of exon 2
----------gtatgaatcacttttgcatgat----tttttcatggcgattgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtagATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAATGATGAAGTTCCTTGTGATCTTGTTTTGCTTGGTACCTCTGATCCACAAG
           ||| | | |   ||  ||| |    | ||| ||  |  |  || |   | |  |    | | | | | ||||   | ||  | |  ||| |||| ||||| |||||  | || || || || || || ||| | ||||| ||||||||||| |||||||| ||||||||| |||| ||||||||||| ||||
tacctaagctttatcatttaaaattatatggtgtgttcttttatatctgtaaatctaatgattttttctggtgggggtgattgccttggt--gata-ttgcagATCCAAGCCCAGGATGTTCATGTAGGTAACATAGTATGGCTACGTGAAAATGATGAAGTGCCTTGTGACCTTGTTTTGATTGGCACCTCTGATCCTCAAG
















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|301502030|gb|HO207570.1|HO207570
EST:     AAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCAT                         ATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAAT
genomic: AAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatca ... ttgcttgtagATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgatttttaggtggtgatagtttgtgttaattgtagtagtatgttgcttgtagATTCAAGCACAGGACATACAAGTTGGGAATATTGTCTGGTTGCGTGAGAATGATGAAGTTCCTTGTGATCTTGTTTTGCTTGGTACCTCTGATCCACAAG
                          tgttaat  putative branch site (score: 3)
                            ttaattgta  TA-rich tract