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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctatcaaaccgtactaatttattaccttgaaaaaacaggatgtagtattaattaaagattctgattaaaaaacactatctaataaccatttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAGGAGCCTTAGGGGTTGGGGCAGTACACCTTGCTCGTTTCTTTGGGCATCA

Basic information

species Arabidopsis thaliana
transcript AT3G11680.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11680.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G38710.1 (Glycine max), 3'ss of exon 1
gtaagtctatcaaaccgtactaatttattaccttgaaaaaacaggatgtagtattaattaaagattctgattaaaaaacactatctaataaccattt-ttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAGGAGCCTTAGGGGTTGGGGCAGTACACCTTGCTCGTTTCTTTGGGCATCA
|||||| |   | | | ||   |  |     |||   | |  |  |   |  |     | |||| |    ||||| |  | |   | ||  | | |  ||    ||||| ||| |||  |||||||||||| ||||| ||||| |||||| |||| || || ||||||||||| |    |||| | ||   |   |||||  |   
gtaagtttcagacatcatatacacattgcttcttattatataattaaagaccaaagtctgaagagtac--ttaaagattaatgctttattcctaataattaaccagGTGCAACCCTTAGCAAAGGTTTAAATAGAGGATTTGCTACATTATTAGCTGGTGCTTTAGGGGTTGGAGGGCAACACTTGGCCACTGCTTTTGGAGAAAG

upper sequence: AT3G11680.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G36060.1 (Glycine max), 3'ss of exon 1
gtaagtctatcaaaccgtactaat--------ttattacct--tgaaaaaacaggatgt-agtattaattaaagatt--ctgattaaaaaacactatctaataaccatttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAGGAGCCTTAGGGGTTGGGGCAGTACACCTTGCTCGTTTCTTTGGGCATCA
|||||| |   | | ||||   ||        ||||||  |  | ||| | ||   | | |  | || |||||||||     ||||| | | | ||| |  |   | |  ||    ||||| ||| ||   |||||||||||| ||||| ||||| |||||| |||| || || ||||||||||| |    |||| | |||      |||||      
gtaagtttcagacatcgtatacatattgctccttattatataattaaagaccaaagtatgaagagtacttaaagattaatgcattaacatataatatgttttgttcttaattaaccagGTGCAACCCTCAGCAAAGGTTTAAATAGAGGATTTGCTACATTATTAGCTGGTGCTTTAGGGGTTGGAGGGCAACACTTAGCTACAGCTTTTGGAGGAAG
















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|116404281|gb|EG446873.1|EG446873
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404273|gb|EG446865.1|EG446865
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404286|gb|EG446878.1|EG446878
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404475|gb|EG447067.1|EG447067
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404282|gb|EG446874.1|EG446874
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404280|gb|EG446872.1|EG446872
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404444|gb|EG447036.1|EG447036
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
EST: gi|116404284|gb|EG446876.1|EG446876
EST:     GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTG                         GTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG
genomic: GGGTATGTGGGCGATACTTACCGTAGTCGTGGTCTTCGAATTCACTGTTGgtaagtctat ... ttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattaattaaagattctgattaaaaaacactatctaataaccatttttgtgtagGTGGAACACTTTCCAAAGGTTTAAACAGAGGGTTTGCAACATTAATAGCAGGAGCCTTAGGGGTTGGGGCAGTACACCTTGCTCGTTTCTTTGGGCATCA
                                   taataac  putative branch site (score: 1)
                                         ccattttt  CT-rich tract
     aattaaagattctgat  TA-rich tract