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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagatttcaattctttactaatgtcatcatcacatatgttttggttagtcttatgattggttatttcaagtaatttcttcttcggtgtttatagCCTGGACCAAGAGATGCAACAATGCAATGCTTTATCAAAAGGGATAAATCTAACTTGACTTATCATTTATATCTTTGTCTCAGTCCTG

Basic information

species Arabidopsis thaliana
transcript AT1G76900.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G76900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G001272_T01 (Zea mays), 3'ss of exon 2
------------------------------------------------------------gttagatttcaattcttt------actaatgtcatcatcacatatgttttggttagt-cttatgattggttatttcaa-------gtaatttcttcttcggtgtttatagCCTGGACCAAGAGATGCAACAATGCAATGCTTTATCAAAAGGGATAAATCTAACTTGACTTATCATTTATATCTTTGTCTCAGTCCTG
                                                            |||| || | | || | |      |    | |  | |  ||| |          | | |  ||||     | | || |        || | | || || |   | |  ||||||| ||  |||||| ||| || |||||||| |||||||||||||||||||     || ||  | || ||||| || || ||  | |
gtgatggtgctctctttgatccttatatgtttcatttccgtttttgtttcataattttatgttatatataacttgtatctgggaagcggtatttttaaaacaaagaaaaccaagaatacagatgaaccactttatctatacattaatactgttttgttggccatattcagCCTGGGCCTCGAGATGTAACCATCCAATGCTTCATCAAAAGGGATAAATCTACTCAAACCTACTACTTGTATCTGTGCCTTAGCACAG

upper sequence: AT1G76900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv12s0055g00460.t01 (Vitis vinifera), 3'ss of exon 3
-----gttagatttcaattctttactaatgtcatcatcacatatgttttggttagtcttatgattggttatttcaagtaatttcttcttcggtgtttatagCCTGGACCAAGAGATGCAACAATGCAATGCTTTATCAAAAGGGATAAATCTAACTTGACTTATCATTTATATCTTTGTCTCAGTCCTG
      |    || |  | ||||| |  | |  |  |        |      |    ||| |       | | | |  | | | | | |  || |||  |||| || ||| | ||||  || || |||||||| ||||||||||||||||||||||| ||||| ||  | | ||| ||||| || ||||
gtaggatccatttgctctgctttatttgttttttttttttccggttccgtaatgaagttacgggcaacaaatactaa-attctttccatttgtattttcagCCAGGGCCACGTGATGGGACTATCCAATGCTTCATCAAAAGGGATAAATCTAACTTAACTTACCACCTTTTTCTATGTCTTAGCCCTG
















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|116440586|gb|EG483178.1|EG483178
EST:     AAAGTCCGGAGCTCTCAGGCAAAATCACATTTCCTGTTTCGTTGAAACAG                         CCTGGACCAAGAGATGCAACAATGCAATGCTTTATCAAAAGGGATAAATCT
genomic: AAAGTCCGGAGCTCTCAGGCAAAATCACATTTCCTGTTTCGTTGAAACAGgttagatttc ... gtgtttatagCCTGGACCAAGAGATGCAACAATGCAATGCTTTATCAAAAGGGATAAATCT
EST: gi|125112417|gb|EL163502.1|EL163502
EST:     AAAGTCCGGAGCTCTCAGGCAAAATCACATTTCCTGTTTCGTTGAAACAG                         CCTGGACCAAGAGA
genomic: AAAGTCCGGAGCTCTCAGGCAAAATCACATTTCCTGTTTCGTTGAAACAGgttagatttc ... gtgtttatagCCTGGACCAAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggttagtcttatgattggttatttcaagtaatttcttcttcggtgtttatagCCTGGACCAAGAGATGCAACAATGCAATGCTTTATCAAAAGGGATAAATCTAACTTGACTTATCATTTATATCTTTGTCTCAGTCCTG
                     ttatttcaagtaattt  TA-rich tract