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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcacgttctatatatctatcaataattcttctatctgcatgacttggtaatggtcaccattagtttacaatccctatgcatttttaatttggccagTTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAAGAGCCTGAATTAGACAAATGGAGTTTATACCTAG

Basic information

species Arabidopsis thaliana
transcript AT2G45990.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G45990.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G46830.1 (Glycine max), 3'ss of exon 7
-------------gtaact-cacgttctatatatctatcaataattcttctatctg-catgact-tggtaatggtcacca--ttagtttacaatccct--atgcatttttaatttggccagTTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAAGAGCCTGAATTAGACAAATGGAGTTTATACCTAG
              || ||  |  |  |  |  |||    |||  ||||  |  |   |  | | || |  || |    |   | ||| |||||   |  |  |   || |  ||  |||| || || || ||  | || || ||  | ||||||||||| ||||||||||| |||||| |||||| ||| || ||  
agtaagatactgtttagctgtaaataatggaattctggttatagctcttaaaattaataaaattctgctcttgcttgttaagatggttcacaataaattaactccagttaatcttaaccaGCTTTGTTGAGGATCGGCTAGCTACCTTAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT-

upper sequence: AT2G45990.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv15s0046g02330.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------------------------------gtaactcacgttctatatatctatcaataattcttctatctgcatgacttggtaatggtcaccattagtttacaatccctat--gcatttttaatttgg-ccagTTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAAGAGCCTGAATTAGACAAATGGAGTTTATACCTAG
                                                         | | |||   | | | |   | |   ||||  | ||  |     |   |  ||||| | |   | | || | ||    |||  || |    ||||| | ||||||| || ||||| ||||| ||||| || || |||||||| |||||||||||||||||    |||| ||| || || |
gtaagatttttttggtgcttagcatatcagcaacagaatcatcatcttaatgcctccttaatcagactgttttttcattttcgtaatcttcctgcccatcagtgatcctaatg-tgaagttaaattgaaaactaatattagcttacccaattttgtccagTTTTGTTGAAGATAGACTTGCAACCCTCAAGAATGTCATCAAAGAGCCTGAATTAGATGGGTGGAATTTGTATCTTG
















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|124838313|gb|EH922752.1|EH922752
EST:     GTTCTAAAGCTACTTCAAGATAAACCAGAACATCAGGGCTTGACGCTGCA                         TTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAA
genomic: GTTCTAAAGCTACTTCAAGATAAACCAGAACATCAGGGCTTGACGCTGCAgtaactcacg ... atttggccagTTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAA
EST: gi|125161098|gb|EL188372.1|EL188372
EST:     GTTCTAAAGCTACTTCAAGATAAACCAGAACATCAGGGCTTGACGCTGCA                         TTTCGTGGAAGACAGACTCGCAACG
genomic: GTTCTAAAGCTACTTCAAGATAAACCAGAACATCAGGGCTTGACGCTGCAgtaactcacg ... atttggccagTTTCGTGGAAGACAGACTCGCAACG
EST: gi|124980811|gb|EL053734.1|EL053734
EST:     ATAAACCAGAACATCAGGGCTTGACGCTGCA                         TTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAAGAGCCTGA
genomic: ATAAACCAGAACATCAGGGCTTGACGCTGCAgtaactcacg ... atttggccagTTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAAGAGCCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttggtaatggtcaccattagtttacaatccctatgcatttttaatttggccagTTTCGTGGAAGACAGACTCGCAACGCTGAAAAATGTCATAAAAGAGCCTGAATTAGACAAATGGAGTTTATACCTAG
                                        ttttaat  putative branch site (score: 3)
                                 tatgcatttttaattt  TA-rich tract