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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacttttatgtgaagcctacgttatatatttactcaacgattatatcacttgatgacttgttacagGCAGCTAATATTCTCAATATCCATGATGTTCCAAACATTTGGCATGTTCCTCTCCTACTCCGT

Basic information

species Arabidopsis thaliana
transcript AT4G02120.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02120.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G01770.1 (Glycine max), 3'ss of exon 9
-----------------gtataacttttatgtgaagcctacgttatatat-ttactcaacgat-tatatcacttgatgacttgttacagGCAGCTAATATTCTCAATATCCATGATGTTCCAAACATTTGGCATGTTCCTCTCCTACTCCGT
                 |   |  | || | |||   | | ||| | | | ||| | |  ||| |||||    || |   || | |||||  |  |||||||| || ||||||||||| ||||||||||||||  |||| ||  ||||  | 
gtaagttggtgaactgagctcagttgttgtctga---caaagttttgtttattagttattgatctatattttctg-tattttttcacagGTTGAGAATATTCTGAACATCCATGATGTACCAAACATTTGGCACATTCCCCTGTTACTGAGA

upper sequence: AT4G02120.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G01840.1 (Glycine max), 3'ss of exon 9
-----------------gtataacttttatgtgaagcctacgttatatatttactcaacgat-tatatcacttgatgacttgttacagGCAGCTAATATTCTCAATATCCATGATGTTCCAAACATTTGGCATGTTCCTCTCCTACTCCGT
                 |   |  | || | |||        || | |   || | |  ||| |||||    || |   || | |||||  |  |||||||| || ||||||||||| ||||||||||||||  |||| ||  ||||  | 
gtaagttggtgaactgagctcagttgttgtctgacaaagtttttgttttaatagttattgatctatattttctg-tattttttcacagGTTGAGAATATTCTGAACATCCATGATGTACCAAACATTTGGCACATTCCCCTGTTACTGAGA

upper sequence: AT4G02120.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv07s0005g01150.t01 (Vitis vinifera), 3'ss of exon 9
----------------gtataacttttatgtgaagcctacgtta-----tatatttac----tcaacgattatatcacttg--atgacttgttacagGCAGCTAATATTCTCAATATCCATGATGTTCCAAACATTTGGCATGTTCCTCTCCTACTCCGT
                | | || |  | |||||       |||      |||  | ||    | |  |||| |      ||  ||   || | | |||  | ||| ||||||||||||||||||||||||||||||||||||||||||||  | || || 
gtaagttattatcattgaaaaattgatttgtgaccttagtgttgaattctattctcacggggtgagggatttttctttctgctatcgtttctcatagGTTGGTAACATTCTCAATATCCATGATGTTCCAAACATTTGGCATGTTCCTCTTTTGCTTCGG

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|124842712|gb|EH927149.1|EH927149
EST:     ACTGCTTGGAAAGTACCAAGGCTAAATTGTCTCAGTTCTGTCATGTGGCG                         GCAGCTAATATTCTCAATATCCA
genomic: ACTGC-TGGAAAGTACCAAGGCTAAATTGTCTCAGTTCTGTCATGTGGCGgtataacttt ... cttgttacagGCAGCTAATATTCTCAATATCCA
EST: gi|124976506|gb|EL049918.1|EL049918
EST:     CACTGCTGGAAAGTACCAAGGCTAAATTGTCTCAGTTCTGTCATGTGGCG                         GCAGCTAATATTCTCAATATCCA
genomic: CACTGCTGGAAAGTACCAAGGCTAAATTGTCTCAGTTCTGTCATGTGGCGgtataacttt ... cttgttacagGCAGCTAATATTCTCAATATCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagcctacgttatatatttactcaacgattatatcacttgatgacttgttacagGCAGCTAATATTCTCAATATCCATGATGTTCCAAACATTTGGCATGTTCCTCTCCTACTCCGT
                                    acttgat  putative branch site (score: 5)
          ttatatatttactcaa  TA-rich tract