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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctttaacatgtaaaatgtgttactcttgttgggaacttatctcctggtttcatataccatactccttataggccctgtttttaattgttttccactcagGTCAGGTCTGTGGCAGCAGAATCTGATAGAGCGTTTCAGGGGGGCCCATTTGAGCGCACATTTTACCAGGAAGCTTCTCTACTCCGTGGGGGAGGTGCAG

Basic information

species Arabidopsis thaliana
transcript AT3G27325.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27325.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA19G24220.3 (Glycine max), 3'ss of exon 3
---tctttaacatgtaaaatgtgttactcttgttgggaacttatctcctggtttcatataccatactccttataggccctgtttttaattgttttccac---tcagGTCAGGTCTGTGGCAGCAGAATCTGATAGAGCGTTTCAGGGGGGCCCATTTGAGCGCACATTTTACCAGGAAGCTTCTCTACTCCGTGGGGGAGGTGCAG
   || ||  ||| || |||   ||| |||  ||    |||  | ||   |    | ||   ||| | || ||   |  | | | | ||| || |||||     ||||  ||||  ||||||||||||||||||| || | ||||   |||||  ||||||| ||||||||||| |||||||| |||   | ||  | ||| |  |
ctgtcattg-cat-tataattaattaatctctttttatactattgtc---gcccaaaattttatatttct-attaacattttctattatttttatccacattatagGTGCGGTCATTGGCAGCAGAATCTGATAGGGCATATCAGAATGGCCCCCTTGAGCGTACATTTTACCAAGAAGCTTCCCTAAGACCTGAAGAAGGAGGTG
















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|116456273|gb|EG498865.1|EG498865
EST:     GTGGAGTTCCTGTTCTTTTCATTCCAGGCAATGCTGGTAGCTACAAGCAG                         GTCAGGTCTGTGGCAGCAGAATCTGATAGAGCGTTTCAGGGGGGCCCATTT
genomic: GTGGAGTTCCTGTTCTTTTCATTCCAGGCAATGCTGGTAGCTACAAGCAGgtaaggatcc ... ttccactcagGTCAGGTCTGTGGCAGCAGAATCTGATAGAGCGTTTCAGGGGGGCCCATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtttcatataccatactccttataggccctgtttttaattgttttccactcagGTCAGGTCTGTGGCAGCAGAATCTGATAGAGCGTTTCAGGGGGGCCCATTTGAGCGCACATTTTACCAGGAAGCTTCTCTACTCCGTGGGGGAGGTGCAG
                                  ttttaat  putative branch site (score: 3)
                                           ttttccactc  putative PPT
                               tgtttttaattgtttt  TA-rich tract