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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA

Basic information

species Arabidopsis thaliana
transcript AT1G73450.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                                           | ||  | | |    |||      | || ||  || |    | | | | |   | || |    ||||| |  |||||| ||||     |    | ||  || |||||||||||| ||||| || || ||||||||||| ||||| ||||| |||||||| || ||||| |||||||||||||| ||||| ||||| ||||| |||||||
---------------------------------------------------------------------------taaatgactcttctccaa------aacaaattgctctcgagtcacagcatcata-taataaagtttgttg--tgtttgctgtactacttattttaaacattgtttgcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G015073_T01 (Zea mays), 3'ss of exon 3
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcaca-agtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                                                ||||| ||  |  || ||  |  ||  |   |||    ||       ||||| |  ||    ||       ||  | || |   |      |||  | ||||||||| || ||||| || || ||||||||||| ||||| ||||| || ||||| || ||||| |||||||||||||| ||||| ||||| ||||| |||||||
------------------------------------------------------------------------------ggaatttcagagctcagggttgataattggttcttttccaaa-------gcaatttgccttaaagtcacaacatttctttaccacttatttcaaatactgtttgcagGAACATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTATGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 3
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttct-ttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                                                  |||||  |||  | |||        |||||||    ||    |||  | || ||| |||     |  |    | | ||   ||  ||     || |  ||||||| || ||| |||| ||||||||||| ||||| |||||  |||| ||||| |||||||||||  |||||||||| |||||||| ||||||||||||||||
-------------------------------------------------------------------------------atgttttaaaacat-tatgaggggctatccttttaaactatgatgttgagaaatatctgtttactagtgatc--atctgac---tttactacgccttgtactgcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCCAACTTATATGAGTTTCACAAATTTAATCGAGAATCAGGGGGTGAAGTGTATTTCACGATGCCAA

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 3
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtg--taacggattcc-ctgaatgttct-ttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                                                      | || ||    |  |  ||| | ||| |  ||    |   |  || ||      | |   ||| || |||   | | || |   ||   | || |  ||||||| || ||| |||| ||||||||||| ||||| |||||| |||| ||||| |||||||||||  |||||||||| || ||||| ||||||||||||||||
--------------------------------------------------------------------------------------aacataatgaagggc--tatccttttaaactataggcaaagtgatgttgagaaatatctgttgattagtgatcatctgactttactacctcttgtactgcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCCAATTTATATGAGTTTCACAAATTTAATCGAGAATCAGGGGGGGAAGTGTATTTCACGATGCCAA

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G06160.1 (Glycine max), 3'ss of exon 5
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgcctt-ttatttaatacctttgcaatat-ttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                                                   ||||   |   |         ||||||| ||  ||||||  | | ||  |  ||  |  | ||  ||  |   | |  |   ||  |  | |||   | ||||||||| ||| |||| |||||||| || ||||| || ||  | || ||||| || |||||||| |||||||||||||||||||| || || || |||||||
---------------------------------------------------------------------------------tgtttacttctgttaattttttaatgccttgtttattaatagttgtacaccaaatttgccatctgatttcatcactctttc---ttttcccattgta--tggcagGAGCATTTGTTAATAGTATGTGAGCTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAA

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G33560.1 (Glycine max), 3'ss of exon 3
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                                                 | ||  |   |  | ||||     |   || | | || |  ||   | | |||| || |  |   ||  |   | |  |   ||  |  | |||   | |||||| || ||| |||| ||||||||||| ||||| || ||  | || ||||| || |||||||| |||||||||||||||||||| || || || |||||||
-----------------------------------------------------------------------------gtttacttctgttaatttttgaatggccttgtttatttatagt-tctacaccaaatttgtcatc-taactttatcactctttc---ttttcccattgta--tggcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAA

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S47_312V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagtgattacatcccttttgcaaaatttggttttgctactgtatatcaaaagtgaccaattgtgtctttctcttcaacaattttagcacaagtgtgaaccatatgccttttatttaatacctttgcaatatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                                                     || | ||   ||| |||| | | | |||  || |  |    |  |||| |  |   |  |     |||  | |||  | | | |||    | | ||  |   |  |   |||    |  ||    || |||||||| ||| | || || |||||  | |||   || ||| | ||||||||||||||||  |||||||||||||||||||| || || || ||||||||  
-----------------------------------------------------gtaatca-cagtggcttt-tgtgctacatgttgatgaatcatacgaactacgt-tatactgcagcatatgtgtgctttttctttctcctcgtactgactaaggctagatattggtgg--tggcgatttcagGAGCATTTGTTCATAGTTTGTGAGTTACTTCGAGCTAATTTGTACGAGTTCCACAAATACAACAGAGAATCAGGTGGTGAGGTGTACTTTACGATGCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatttctctttgtggattgtttggtgtaacggattccctgaatgttctttgcagGAGCACTTGCTAATTGTATGTGAACTTCTTAAGGCCAATCTATACGAGTTCCACAAATTTAACAGAGAATCAGGTGGTGAAGTTTATTTCACGATGCCAA
                        gtgtaac  putative branch site (score: 3)
                                           tgttcttt  putative PPT
                attgttt  TA-rich tract