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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatgctttctccttttcgataatgtttttttgctattttgtctttgaaaaatggttttatctgaattgattacttatgagcagGTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCATGAATCTGGTCACGCAGTTGTAGGGTGGTTCCTTGAACATGCAGAGCCGTTACTGAAAGTGA

Basic information

species Arabidopsis thaliana
transcript AT2G29080.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G29080.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g62500.1 (Oryza sativa), 3'ss of exon 6
-gtaaaatgctttctccttttcgataatgttttttt----------gctattt--tgtctttgaaaaatggttttatctgaattgattacttatgagcagGTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCATGAATCTGGTCACGCAGTTGTAGGGTGGTTCCTTGAACATGCAGAGCCGTTACTGAAAGTGA
  | || |||| |  | ||     ||| || || |            | |||     |   ||   |  |||| | |    ||  ||   |      |||||||| |||||||||||||| || || ||||| || |||||||||||||| || ||||  || |||||  | || ||||| |||||  ||||||| || |
aattaagtgctgttgcattggatgtaaagtattatatggggcatgaacaattggacattcatgtgtagcggttatgtacttatcaatctgtccaccacagGTGATTAGCAAGTTGGAGCGGCGAACTGTTGCTTACCATGAATCTGGTCATGCTGTTGCTGGATGGTTTTTGGAGCATGCCGAGCCACTACTGAAGGTCA

upper sequence: AT2G29080.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G038401_T01 (Zea mays), 3'ss of exon 6
------------------------------------------------------------------------------------gtaaaatgctttctccttttcgataatgtt-tttttgctattttgtctttgaaaaatggttttatct---gaattgattacttatgagcagGTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCATGAATCTGGTCACGCAGTTGTAGGGTGGTTCCTTGAACATGCAGAGCCGTTACTGAAAGTGA
                                                                                     |  |  || || | || |   ||    || |||||||   |    || | |    |  | |   ||     |  | | ||   |  |||||| || |||||  ||||||| ||||| ||||| || ||||||||||| || |||||||  || |||||| | |||||||| |||||  | || ||||| |
gtaagagaatatcatagtagtataacctatgaagctgatttgtgagatttatttcggtgccttattgggatcctaattaagttacttgacagcctttttctatgtaatgtcattctttttgcacatgcaactattattccttatgtggcctctgagaacgttaacccttttgcagGTCATTAGCAAACTGGAGCGCCGTACTGTTGCTTACCATGAATCTGGACATGCAGTTGCTGGATGGTTCTTGGAACATGCTGAGCCTCTTCTAAAAGTTA
















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|86058635|gb|DR354392.1|DR354392
EST:     TTGAATCTGCGATTGATCGTGTTATTGGTGGTCTTGAGAAGAAAAACCGG                         GTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCATGAATCTGGTCAC
genomic: TTGAATCTGCGATTGATCGTGTTATTGGTGGTCTTGAGAAGAAAAACCGGgtaaaatgct ... ttatgagcagGTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCATGAATCTGGTCAC
EST: gi|124851252|gb|EH935689.1|EH935689
EST:     ATCGTGTTATTGGTGGTCTTGAGAAGAAAAACCGG                         GTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCA
genomic: ATCGTGTTATTGGTGGTCTTGAGAAGAAAAACCGGgtaaaatgct ... ttatgagcagGTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgctattttgtctttgaaaaatggttttatctgaattgattacttatgagcagGTGATAAGCAAGTTGGAGCGACGTACAGTTGCATATCATGAATCTGGTCACGCAGTTGTAGGGTGGTTCCTTGAACATGCAGAGCCGTTACTGAAAGTGA
                                   aattgat  putative branch site (score: 4)
                  aaaaatggttttat  TA-rich tract