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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcaatcttcaaatacttcataaagttacgattttgcaatcataatataatcttaggtttttgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGATGGTTTTAGAATGAATCAGATCCTTGTTGGGTTATGGTACATCATGGGTT

Basic information

species Arabidopsis thaliana
transcript AT2G04360.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G04360.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G07300.1 (Glycine max), 3'ss of exon 2
---------------------gtacgcaatcttcaaatacttcataaagttacgattttgcaatcataatataatcttaggtttttgtat-----tgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGATGGTTTTAGAATGAATCAGATCCTTGTTGGGTTATGGTACATCATGGGTT
                        | | ||    | ||  ||| |    ||  | |||    |      |    | ||   || || |||     | ||| ||   |||  ||| || |||||||||||  ||||| ||||||| ||||||||||| ||||||||| |  | || ||    || |||||  | ||||| |
aagtatcctttgcagtttctatctccccatgcctatatttttcctttctttttgttttaatcagtgaggttacttttttttttcttttatcttcattcagTCAAGGGACACGTATTTCTTGAAAAAGCTCCTGAATCTGAAAGGAGATGATGGTTTCAGAATGAATGAAGTGCTAGTATCATTGTGGTATTTAATGGGCT

upper sequence: AT2G04360.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA13G11710.1 (Glycine max), 3'ss of exon 1
--------------------gtacgcaatcttcaaatac-----ttcataaagttacgattttgcaatca-taatataatcttaggtttttgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGATGGTTTTAGAATGAATCAGATCCTTGTTGGGTTATGGTACATCATGGGTT
                     |   || ||| |  || |     ||  |    |     | ||  ||||| | |  | |  ||   ||||  |  | ||| ||   |||  ||| || |||||||||||  ||||| ||||||| ||||||||||| ||||||||| |  | || ||    || |||||  | ||||| |
aagtagcctttgcagcttctatctccattctccccatgcctttatttttcctttccttttgttttaatcagtgaggttacttttttttttcctcattcagTCAAGGGACACGTATTTCTTGAAAAAGCTCCTGAATCTGAAAGGAGATGATGGTTTCAGAATGAATGAAGTGCTAGTATCATTGTGGTATTTAATGGGCT
















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|125251414|gb|EL265499.1|EL265499
EST:     TTGCTTCAATCTCGCTCCTGATCAAACACCC                         ACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
genomic: TTGCTTCAATCTCGCTCCTGATCAAACACCCgtacgcaatc ... tgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
EST: gi|116416787|gb|EG459379.1|EG459379
EST:     GGGGTGCGCTCTTGTACTATTGCTTCAATCTCGCTCCTGATCAAACACCC                         ACACAAGACTCGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
genomic: GGGGTGCGCTCTTGTACTATTGCTTCAATCTCGCTCCTGATCAAACACCCgtacgcaatc ... tgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
EST: gi|86069678|gb|DR365435.1|DR365435
EST:     GGGGTGCGCTCTTGTACTATTGCTTCAATCTCGCTCCTGATCAAACACCC                         ACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
genomic: GGGGTGCGCTCTTGTACTATTGCTTCAATCTCGCTCCTGATCAAACACCCgtacgcaatc ... tgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
EST: gi|19876655|gb|AU237486.1|AU237486
EST:     GGGGTGCGCTCTTGTACTATTGCTTCAATCTCGCTCCTGATCAAACACCC                         ACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT
genomic: GGGGTGCGCTCTTGTACTATTGCTTCAATCTCGCTCCTGATCAAACACCCgtacgcaatc ... tgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcataaagttacgattttgcaatcataatataatcttaggtttttgtattgcagACACAAGACTTGTACTTTTTGAAAAAGCTTTTGAATTTGAAAGGTGATGATGGTTTTAGAATGAATCAGATCCTTGTTGGGTTATGGTACATCATGGGTT
                                         tttttgt  CT-rich tract
              attttgcaatcataat  TA-rich tract