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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgagtctaattctaacaacattcaccaaaagaaaatgaaatggctgaaataatttcttatcaaagttgattatgtacagGAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATGCCTATGATTGACCAG

Basic information

species Arabidopsis thaliana
transcript AT4G01480.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G01480.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA16G01960.1 (Glycine max), 3'ss of exon 3
---gtttgagtctaattctaacaacattcaccaaaagaa------aatgaaatggctgaaataatttcttatcaa--------agttgattatgt-acagGAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATGCCTATGATTGACCAG
                                 | || |       || | ||     |  | ||   |||  ||        | ||| | |  | | |||||||||| ||||| |||||||| || || ||| | || ||||| || ||||||||||||||||||
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatagtataatctgataatatcaacaaggttatccattagtaaatttactgaattgttgacatgatagGAGCCTGTTCTTCCCGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
















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|116470399|gb|EG512991.1|EG512991
EST:     GCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTATCATGCAG                         GAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATG
genomic: GCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTATCATGCAGgtttgagtct ... ttatgtacagGAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATG
EST: gi|116470397|gb|EG512989.1|EG512989
EST:     GCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTATCATGCAG                         GAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATG
genomic: GCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTATCATGCAGgtttgagtct ... ttatgtacagGAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaaaagaaaatgaaatggctgaaataatttcttatcaaagttgattatgtacagGAGCCTGTGCTTCCGGGTTGTTTTCTTCGCGCCCGAGCTATTGGTTTAATGCCTATGATTGACCAG
                                       agttgat  putative branch site (score: 5)
                      aaataatttcttatca  TA-rich tract