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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccatcctttattccctctctgatgttctgattcaatcttaaaaacctcagcttgaatttttgttgtggggttttggttgggtttgtgaattttagATGCAATGTGGCAAATGAACTTGGGATCAGATGATACAATGGGTGTTGATGGGTCTTATCCGGAACGTCACGGAGAGCCAGATTGTGCTTATTATATAAG

Basic information

species Arabidopsis thaliana
transcript AT5G16540.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16540.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 1
gtaccatcctttattccctctctgatgttctgattcaatcttaaaaacctcagcttgaatttttgttgtggggt--tttggttgggtttgtga-----attttagATGCAATGTGGCAAATGAACTTGGGATCAGATGATACAATGGGTGTTGATGGGTCTTATCCGGAACGTCACGGAGAGCCAGATTGTGCTTATTATATAAG---
   |  |     |||   | |||||  |  |  |||    |||      |   |  ||| | || ||    | |  | ||  |   |||   |      ||  ||||||||||||||||||||||||| ||||   ||| |||||||  ||   |||  ||||||| || ||||  ||||| ||||| ||| |||| || || ||   
---ctttgaaagattatttatctgaaat--tacttcctctttagtttgttatacgggaagtatttttaaaagatgatctgacttactttcctatcattgttccagATGCAATGTGGCAAATGAACTTGAGATCGAGTGAAACAATGGA-GTC--TGGACCTTATCCCGAGCGTCCGGGAGAACCAGACTGTTCTTACTACATCAGGAC
















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|152038071|gb|BP807132.2|BP807132
EST:     TGATTCCATTTCTCGGGAAAGCACTTTTCTTTCCCCATGGCTTAACCAAA                         ATGCAATGTGGCAAATGAACTTGGGATCAGATGATACAATGGGTGTTGATG
genomic: TGATTCCATTTCTCGGGAAAGCACTTTTCTTTCCCCATTGCTTAACCAAAgtaccatcct ... tgaattttagATGCAATGTGGCAAATGAACTTGGGATCAGATGATACAATGGGTGTTGATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaacctcagcttgaatttttgttgtggggttttggttgggtttgtgaattttagATGCAATGTGGCAAATGAACTTGGGATCAGATGATACAATGGGTGTTGATGGGTCTTATCCGGAACGTCACGGAGAGCCAGATTGTGCTTATTATATAAG
           ttgaattttt  TA-rich tract