Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATACTGTTTCAGACTGCTGTGTTTGCCTTCAAAACAACAACATTCCTTTCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataactacaccgttggatgaatacatgttttgaattacttaatcaaaagtgaataacagtttgaatgtaaaaattgcag

Basic information

species Arabidopsis thaliana
transcript AT4G26850.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA14G02500.1 (Glycine max), 5'ss of exon 6
TGATACTGTTTCAGACTGCTGTGTTTGCCTTCAAAACAACAACATTCCTTTCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataactacaccgttggatgaatacatgttttgaattacttaatcaaaagtgaataacagtttgaatgtaaaaattgcag--
  ||  |||||||||   |||| | || ||||| ||||||||||| ||||||||  |||| |||||||| ||||||| |||  |||   |  | |||||||||   |||||   | |      | |  || |    |||   ||      |  ||  |    || |  |   || |  || |   
AAATGTTGTTTCAGATGCCTGTATATGTCTTCAGAACAACAACATACCTTTCAATGTTCTTATCTCTGACTGTGGAAAGCAAGTCTATCTGTTACCACAGgta---aactaattcttgaagcaagtgaatttgcctaatctattttcattagttgtgtgggggtatttaccaaatatctgaacag

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 6
TGATACTGTTTCAGACTGCTGTGTTTGCCTTCAAAACAACAACATTCCTTTCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatat--aactaca-ccgttggatgaatacatgttt---tgaattactta-atcaaaagtgaataacagtttgaatgtaaaaattgcag
  |   |||||||||    ||| | || ||||| ||||||||||| ||||||||  |||| |||||||| ||||||| |||  | |   |  | ||||||||| ||  || |  |    ||||| | | |    |||   | |   | ||  || |   |||      | ||   |    | |    |||
AAACGTTGTTTCAGATGCATGTATATGTCTTCAGAACAACAACATACCTTTCAATGTTCTTATCTCTGACTGTGGAAAGCAAGTGTATCTGTTACCACAGgtaaattaaattctaattcttggaagtaaatgaatttgcataatccattttcattagttgtgtggggtatttaccaaaatagatgaacag
















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|125099999|gb|EL155607.1|EL155607
EST:     TAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
genomic: TAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
EST: gi|86058721|gb|DR354478.1|DR354478
EST:     TCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
genomic: TCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
EST: gi|125104772|gb|EL158751.1|EL158751
EST:     AACATTCTCATCTCTGATTTGTTGGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGG
genomic: AACATTCTCATCTCTGA-TTG-TGGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGG
EST: gi|124976791|gb|EL050181.1|EL050181
EST:     TTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
genomic: TTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
EST: gi|124831567|gb|EH916006.1|EH916006
EST:     CATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCC-GGAGGTAT
genomic: CATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTAT
EST: gi|125296919|gb|EL311004.1|EL311004
EST:     ATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
genomic: ATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
EST: gi|124996502|gb|EL068771.1|EL068771
EST:     GGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
genomic: GGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
EST: gi|164122852|gb|ES157825.1|ES157825
EST:     TTGTGGAAGGCAGATCTTCTTAACTGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGA
genomic: TTGTGGAAGGCAGATCTTCTTAA-TGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGA
EST: gi|86058720|gb|DR354477.1|DR354477
EST:     TCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
genomic: TCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGAA
EST: gi|124753720|gb|EH843850.1|EH843850
EST:     TTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAG                         TGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGA
genomic: TTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataact ... aaaattgcagTGTTACGCAGAGAAACAGGCTCTAGGTGAAGTGAGCCCGGAGGTATTGGA

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATACTGTTTCAGACTGCTGTGTTTGCCTTCAAAACAACAACATTCCTTTCAACATTCTCATCTCTGATTGTGGAAGGCAGATCTTCTTAATGCCACAGgtatataactacaccgttggatgaatacatgttttgaattacttaatcaaaagtgaataacagtttgaatgtaaaaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT