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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgtgtatcttcattgttgcacatacttttattctttcacgtaggttaataatgtttttttttttttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATGAGGAATTGAAAAGGATCCGCGAATCTCGTGGTTACTCCTACATG

Basic information

species Arabidopsis thaliana
transcript AT2G26400.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G26400.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv05s0020g04080.t01 (Vitis vinifera), 3'ss of exon 2
gtctgtgtgt--atcttcattgttgcacatacttttattctttcacgtaggttaataatgttttttttt------ttttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATGAGGAATTGAAAAGGATCCGCGAATCTCGTGGTTACTCCTACATG
|| ||| | |  | | | | |||||  || ||  | |  |        |||||   | |   |  |  |      |||    | |||| |||||||| ||  ||||| || | |||||||||||||||||||| |||||||||||||| | ||| || ||| | ||||| ||||||||||||
gtatgtattttaaccgtaaatgttgttcagaccatgaaacccattaaaaggttgtcactaactgctcatgagcgatttaccttgcagAACTTGGAGTGCTCAGCTGGCGATTAGATGCTGATAACTATGAAACAGATGAGGAATTGAAGAAGATTCGTGAAGCCCGTGGATACTCCTACATG
















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|116474360|gb|EG516952.1|EG516952
EST:     TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAG                         AGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAGgtctgtgtgt ... ttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
EST: gi|116480054|gb|EG522646.1|EG522646
EST:     TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAG                         AGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAGgtctgtgtgt ... ttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
EST: gi|124951270|gb|EL026656.1|EL026656
EST:     TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAG                         AGCTTGGAGTACTTTGCTGGAGACTTGATGC
genomic: TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAGgtctgtgtgt ... ttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGC
EST: gi|116480263|gb|EG522855.1|EG522855
EST:     TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAG                         AGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATG
genomic: TCCTCACCACAAGGATCCTAAGGAATTTGTATCTTTGGACAAACTTGCAGgtctgtgtgt ... ttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatacttttattctttcacgtaggttaataatgtttttttttttttttgttcagAGCTTGGAGTACTTTGCTGGAGACTTGATGCTGATAACTATGAAACCGATGAGGAATTGAAAAGGATCCGCGAATCTCGTGGTTACTCCTACATG
                       ggttaat  putative branch site (score: 4)
                                tgtttttttttttttt  putative PPT
                     taggttaataatgttt  TA-rich tract