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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgggaaacattaagtggttttcagtctattgatatattgcccaaatgtttgactccctacacttcaaaacccagtttttgaaagtaaaaactgactcttgaacttttttgtaattctagGCTCTTTCAAGTCCTGTTTTAGCTGCTGTTGGTGAACGCTATTATAAGGTGACTGCTGAGGCATTAAGGGTTTGTGGGGAACTTGTCAGAGTAGTACGCC

Basic information

species Arabidopsis thaliana
transcript AT2G02560.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 15
-gttgggaaacattaagtggttttcagtctattgatatattgcccaaatgtttgactccctacacttcaaaacccagtttttgaaagtaaaaactgactcttgaacttttttgtaattctagGCTCTTTCAAGTCCTGTTTTAGCTGCTGTTGGTGAACGCTATTATAAGGTGACTGCTGAGGCATTAAGGGTTTGTGGGGAACTTGTCAGAGTAGTACGCC
 ||| ||| |  |||| | || || |    ||  |||   | | | ||  |     |  ||   ||| |     || |     |  ||| ||               || ||||  || ||||| ||||| ||||| |||||| ||||||||||||| || || || || || ||||||||||||||||| || || || ||||||||| | || || ||||
tgtttggatattttaatttgtattta--tcataaatactatacaccaacatgaatgtatct-tgcttgattcttcaatc----atggtacaa---------------ttgttgtttttttagGCACTTTCCAGTCCCGTTTTATCTGCTGTTGGTGAGCGTTACTACAAAGTCACTGCTGAGGCATTAAGAGTATGCGGAGAACTTGTCCGTGTTGTGCGCC
















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|124926147|gb|EL004038.1|EL004038
EST:     AATTAGTCTTGGCATCACATGCGCCTCCTGTTTTTCACCCTTACATTAAG                         GCTCTTTCAAGTCCTGTTTTAGCTGCTGTTGGTGAAC
genomic: AATTAGTCTTGGCATCACATGCGCCTCCTGTTTTTCACCCTTACATTAAGgttgggaaac ... gtaattctagGCTCTTTCAAGTCCTGTTTTAGCTGCTGTTGGTGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaacccagtttttgaaagtaaaaactgactcttgaacttttttgtaattctagGCTCTTTCAAGTCCTGTTTTAGCTGCTGTTGGTGAACGCTATTATAAGGTGACTGCTGAGGCATTAAGGGTTTGTGGGGAACTTGTCAGAGTAGTACGCC
                        aactgac  putative branch site (score: 2)
                                      cttttttgt  putative PPT
          tttttgaaagtaaaaa  TA-rich tract