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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTGATGATACCCCTTGGGATGGAGgtaaagttttgttattgtaatcacttaacttgagaattttggcaatcttttatgtatctggtcttatgtctcttttgtatggtcttgttag

Basic information

species Arabidopsis thaliana
transcript AT2G02760.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G02760.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os05g08960.1 (Oryza sativa), 5'ss of exon 3
GCCTGATGATACCCCTTGGGATGGAGgtaaagttttgttattgtaatcacttaacttgagaattttggcaatcttttatgtatctggtcttatgtctcttttgtatggtcttgttag----------
 ||||||||||| ||||||||||||||||| |  ||   | | |  ||  || | ||| |  ||           ||  |    |  ||  | |  |  | ||       ||               
CCCTGATGATACTCCTTGGGATGGAGgtaaggaatttaaagtctt-tccttttatttggggtttgcatttgggacttgggagagtaatcacaggcatgatatggggaaatttaactattttccactt
















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|125069815|gb|EL135456.1|EL135456
EST:     CTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: CTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|125069497|gb|EL135252.1|EL135252
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAA
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAA
EST: gi|301503183|gb|HO208723.1|HO208723
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAAC
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAAC
EST: gi|116431365|gb|EG473957.1|EG473957
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|124745520|gb|EH836332.1|EH836332
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCA
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCA
EST: gi|125111740|gb|EL163097.1|EL163097
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|124769329|gb|EH859459.1|EH859459
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTA
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTA
EST: gi|124797125|gb|EH886804.1|EH886804
EST:     CGGGACCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: CGGG-CCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|116428641|gb|EG471233.1|EG471233
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|124762989|gb|EH853119.1|EH853119
EST:     GCCTGATGATACCCCTTGGGAATGGAG                         GTACTTTCAAATTGTCACTGCA
genomic: GCCTGATGATACCCCTTGGGA-TGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCA
EST: gi|116454996|gb|EG497588.1|EG497588
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|124845142|gb|EH929579.1|EH929579
EST:     CCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: CCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
EST: gi|125013440|gb|EL085709.1|EL085709
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCA
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCA
EST: gi|301502531|gb|HO208071.1|HO208071
EST:     GCCTGATGATACCCCTTGGGATGGAG                         GTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC
genomic: GCCTGATGATACCCCTTGGGATGGAGgtaaagtttt ... gtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCTGATGATACCCCTTGGGATGGAGgtaaagttttgttattgtaatcacttaacttgagaattttggcaatcttttatgtatctggtcttatgtctcttttgtatggtcttgttag

- - - - - - - - -  GATGGA