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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtttctcttaattttgatttcaaagcaatccatgtttgtgtttttgctacaaatgatcctaatctttcaaatatgtgacctagttaattcttcgttattgatttggatgtgattcgtggaagtttatgctagacgctcttgtgtatgtgtatcttgtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGATGAAAACGTTTTGGCATTCAGAGACATTAACCCTCAGGCTCCTGTTCAT

Basic information

species Arabidopsis thaliana
transcript AT1G31160.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G31160.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv01s0011g01610.t01 (Vitis vinifera), 3'ss of exon 3
gtatggtttctcttaattttgatttcaaagcaatccatgtttgtgtttttgctacaaatgatcctaatctttcaaatatgtgacctagttaattcttcgttattgatttggatgtgattcgtggaagtttatgctagacgctcttgtgtatgtgtatcttgtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGATGAAAACGTTTTGGCATTCAGAGACATTAACCCTCAGGCTCCTGTTCAT
                                                                   || |   | |   |        ||||  |||    |       | | |     | | |||||  || | | |   | | || ||     |  |||  ||| |||||||||||||||||||| || |||||||| |||   ||||| ||||| |||||||| ||| | |||||  | ||  | ||||| || ||||| ||||||
------------------------------------------------------------------ttcgtaggactccatagtaatactaataattca--gtcagacaagttttctacagagaaagttcttgattg-cagccatatg-atagaattgatgttttttcagATTTGACAAGATTATAGCTAAGGAGATTCCTTCAACCATTGTGTATGAGGATGAAAAAGTTCTAGCATTTCGGGATGTCAACCCACAAGCTCCAGTTCAT
















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|47830352|gb|CK120036.1|CK120036
EST:     GCCGCCGCGAAAGCTGCGGCTTCTGTTGCTGACACCGGAGCTCCGACCAT                         ATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA
genomic: GCCGCCGCGAAAGCTGCGGCTTCTGTTGCTGACACCGGAGCTCCGACCATgtatggtttc ... gtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA
EST: gi|164067791|gb|ES116180.1|ES116180
EST:     CTTCTGTTGCTGACACCGGAGCTCCGACCAT                         ATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATGTTGTCTATGAAGA
genomic: CTTCTGTTGCTGACACCGGAGCTCCGACCATgtatggtttc ... gtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA
EST: gi|19877577|gb|AU238408.1|AU238408
EST:     GCCGCCGCGAAAGCTGCGGCTTCTGTTGCTGACACCGGAGCTCCGACCAT                         ATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA
genomic: GCCGCCGCGAAAGCTGCGGCTTCTGTTGCTGACACCGGAGCTCCGACCATgtatggtttc ... gtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA
EST: gi|124927789|gb|EL005489.1|EL005489
EST:     CGGCTTCTGTTGCTGACACCGGAGCTCCGACCAT                         ATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA
genomic: CGGCTTCTGTTGCTGACACCGGAGCTCCGACCATgtatggtttc ... gtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcgtggaagtttatgctagacgctcttgtgtatgtgtatcttgtggttttagATTTGACAAGATTATAGCAAAAGAGATTCCCTCAGATATTGTCTATGAAGATGAAAACGTTTTGGCATTCAGAGACATTAACCCTCAGGCTCCTGTTCAT
         aagtttat  TA-rich tract