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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctctcgtcttgcactctaagacaacatgcttttttgttgcttcctttatcagcttaaaattgataaactgttcactgtagGCCTCTGCTTTGTTGGCCTTACCCATCTTCATAGTGTACAAATTCCTCTGTTCGCTCTTCTG

Basic information

species Arabidopsis thaliana
transcript AT2G24420.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G24420.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv04s0008g02720.t01 (Vitis vinifera), 3'ss of exon 12
-----------------gtatgttctctcg-tcttgcactctaagacaacatgcttttttg-ttgcttcc--tttatcagcttaaaattgataaactgttca---ctgtagGCCTCTGCTTTGTTGGCCTTACCCATCTTCATAGTGTACAAATTCCTCTGTTCGCTCTTCTG
                 |||| ||   | | |||||   | |  | || ||   || |||| |||||     |||      |   || ||||    | ||      | |||||||||||||||||||||||||||||| || |  |||  | | |    |   |  | |||||
gtatgtatctattgatcgtatttttctttgatcttgatttgtttgtcatcaaatttctttgcttgctagaaattttctgtgtgctaactgatctgtttttttaatttatagGCCTCTGCTTTGTTGGCCTTACCCATCATCTTTTTGTTTAGAATTTGTTCAGCCATATTCTG
















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|124826300|gb|EH911166.1|EH911166
EST:     GCCATGAGCTGTTGGAACCTTTTGCCACCAAAGAGTTCATTTGGTTTGCA                         GCCTCTGCTTTGTTGG
genomic: GCCATGAGCTGTTGGAACCTTTTGCCACCAAAGAGTTCATTTGGTTTGCAgtatgttctc ... ttcactgtagGCCTCTGCTTTGTTGG
EST: gi|125183283|gb|EL198257.1|EL198257
EST:     CACCAAAGAGTTCATTTGGTTTGCA                         GCCTCTGCTTTGTTGGCCTTACCCATCTTCATAGTGTACAAATTCCTCTGT
genomic: CACCAAAGAGTTCATTTGGTTTGCAgtatgttctc ... ttcactgtagGCCTCTGCTTTGTTGGCCTTACCCATCTTCATAGTGTACAAATTCCTCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcttttttgttgcttcctttatcagcttaaaattgataaactgttcactgtagGCCTCTGCTTTGTTGGCCTTACCCATCTTCATAGTGTACAAATTCCTCTGTTCGCTCTTCTG
                                aattgat  putative branch site (score: 4)
                            ttaaaattgataaact  TA-rich tract