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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctttactgatcttttctattattcaaagtatatatctgacatgttttttgtacaaaaacatttgacatgttgttggttaatgtgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA

Basic information

species Arabidopsis thaliana
transcript AT2G21050.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 2
-------gtttctttactgatcttttctattattcaaagtatatatctgacatgttttttgtacaaaaac----atttgac-atgttgttggttaa--------tgtgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA
           |   | | |  |  | | ||||| ||  ||  |       ||    | |  |  ||| |    ||||||   |  | ||  | ||        | || ||||||||||||||||||||||| | || |||||||| ||||| || || ||||| |||||||||||||| || ||||| ||||||||||| || ||||| |
gttcaactcaccaacattaacataattttttatttaatataagtccaaacaataacctcttaattaaatcttaaatttgattgtcgttttaatcaaataaattttatgcagTGGTTTGAGGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAACTGA

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 2
gtttctttactgatcttttctattattcaa------agtatatatctgacatgttttttgtacaaaaacatttgacatgttgtt-ggttaa----------tgtgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA
|||    |    | | ||   || ||| ||      |  |||  |   |  |  ||    |  ||      ||| | | || ||    |||          | || |||||||||| |||||||||||| | || |||||||| ||||| || || ||||| |||||||||||||| || ||||| ||||||||||| || ||| | |
gttcaactcaccaacattaagataatttaattagctaacatacgttcaaagtaattaaattttaactttggttgtcgttttattcaaataaataaataaattatgcagTGGTTTGAAGTTCTTGATGGACTCCTCGGGAAGCACTGGAGAAACGTGGGTTTGGCCTTTAACTGCACATTTCTTCTGTTTGGATCTGTTATACAATTGA

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G00690.1 (Glycine max), 3'ss of exon 2
---------------------------gtttctttactgatcttttctattattcaaagtatatatctgacatgttttttgtacaaaaacatttgacatg-ttgttggttaatg--tgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA
                             |  | || ||    | |  |   ||  |  ||||  ||   |    | | ||||   |    |||   |   ||     ||||    || ||||||||||||||||||||||  | || |||||||| ||||| || || || || ||||| |||||||| || ||||| ||||||||||| || |||||||
gttccactctcccattctcaaattctaaatattatattgtctctctgcaactttttatatatacttcgatctcaatgtatgtatctatctgtttttaacacttacaacttaactattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAGCACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 2
--------------------gtttct-----ttactgatcttttctattattcaaagtatatatctgacatg---ttttttgtacaaaaacatttgacatgttgttggttaatg--tgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA
                      ||||     || |     | || ||||  ||   ||  |  | | | ||    || |   |         ||| |  |       |||      || ||||||||||||||||||||||  | || ||||| || ||||| || || || || ||||| |||||||| || ||||| ||||||||||| || |||||||
gttccactatcccactttcaaattctaaatattgcatgcttcttatattggtctctgtgcaacttttatatatacttctcaatgtgtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 2
------------gtttctttactgatcttttctattattcaaagtatatatctgacatgttttttgtacaaaaacatttgacatgtt-----gttggttaatgtgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA
              | ||   |   |||| |||  ||       |  || | |   ||   |||   |||      | | |||  ||     |||   |  |   ||||||||||| |||||||||||  ||||||| || || |||||||| || || || || || |||||||| || ||||| |||||||| || ||||||||||
gtcttgatcagtactactccccatttcttctctcctaccactgttccatctttttgatccatttcccacatggggttctcacactttcatgtgttttcttgtcaaaagTGGTTTGAAGTTCTTGATGGGCTGCTTGGCAAACACTGGAGGAACGTGGGGTTGGCTTTCAACTGCACTTTTCTTCTGTTTGGATCCGTGATTCAACTCA

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|125321117|gb|EL335202.1|EL335202
EST:     GAACCAGAAAGGAAAGAGAGAAAGTTAACTTCAGAAACCATGTCATTCAG                         TGGTTTGAGGTTCTTGATAGGAATTGCTTGGGAAGCATTGGAGGAATGT
genomic: GAACCAGAAAGGAAAGAGAGAAAGTTAACTTCAGAAACCATGTCATTCAGgtttctttac ... taatgtgaagTGGTTTGAGGTTCTTGAT-GGA-TTGCTTGGGAAGCATTGGAGGAATGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctgacatgttttttgtacaaaaacatttgacatgttgttggttaatgtgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA
           ttttttgtacaaaaa  TA-rich tract