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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcatcatcattcatcttctctcactgactctctcactctctctaaaatgcaaatgggtttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC

Basic information

species Arabidopsis thaliana
transcript AT5G27210.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G30010.3 (Glycine max), 3'ss of exon 3
-------------------------------------------------------gtaatcatcatcattcatcttctctcactgactctctcactctctctaaa-atgcaaatgggtttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC
                                                       ||| |  |  |  ||       ||   ||   |   |   |||  ||||   |    ||  | |   |  |||| ||||||||| | ||||||||||| |||||||| || ||||| |||||||| || || ||  | |||||| | |            ||    |  || 
gtcataatggccttcacttaattcctggggttcagtttttattagtcaagccttggtattgtttgtagtttggacaatcctccttctttcattgatctgactaattgttgttatttgatgattatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA

upper sequence: AT5G27210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G37380.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------gtaatcatcatcattcatcttctctcactgactctctcactctctctaaaatgcaaatgggtttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC
                                                                ||| | |  |   |    ||||| ||| |||   ||| |||   | ||    |  | || | |   | ||||| ||||||||| | ||||||||||| |||||||| || ||||| ||||| || || || ||  | |||||| | |            ||    |  || 
gtcataatgcccttcacttaatgcctggggttcagtttttactagtcaaaccatgttattgtttgtagttaggacagtcttccttctttcattga---tctgactagttgta----gttattgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA

upper sequence: AT5G27210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0030g00750.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------------------------------gtaatcatcatcattcatcttctctcactgactctctcactctctctaaaatgcaaatgggtttgctg------cagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC
                                                             | ||    | ||  |   | | | |       |   | || || ||   |   | ||||| |||||      ||||| ||||||||| | |||||||||||||||||||| |||||||| ||||| || || || ||  |||||||||| |    | |  | |         |  
gtcatcggatgtccatcccttgcaagttcctctgttatttctttgaaatctgttttgccccattccatgtaat--actctattttatgattgattagattcgctataggttatgactgggtgtgctgtgatgacagGAGGAAGATTTGCATTTGGAGAATGTATACTACTCTGAGATGAAAGATGCCGGCTTCTTTGATGCTGATTGGGAGTGATGCAACTGCACTTTCTGAATCA

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|86082752|gb|DR378511.1|DR378511
EST:     CATTATACCTTCCTCTTCTTTACATAACGTTCCTCGCAGACTTTTTCCAG                         GAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCT
genomic: CATTATACCTTCCTCTTCTTTACATAACGTTCCTCGCAGACTTTTTCCAGgtaatcatca ... tttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCT
EST: gi|125087028|gb|EL146304.1|EL146304
EST:     CCTCGCAGACTTTTTCCAG                         GAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCT
genomic: CCTCGCAGACTTTTTCCAGgtaatcatca ... tttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttctctcactgactctctcactctctctaaaatgcaaatgggtttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC
                            tctaaaat  TA-rich tract