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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaattttatttcattgatatgcatgctatcttggttctttactggcagctgatgttcaagtttttattaatttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG

Basic information

species Glycine max
transcript GLYMA19G42340.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g32600.1 (Oryza sativa), 3'ss of exon 5
--------------------gtgaattttatttcattga-tatgcatgctatcttggttctttactggcagc-tgatgtt-caagtttttattaatttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
                      ||||||| || | |||| |     || |   | ||||||  | | | |   ||   || |   |||||  ||  ||||||| || ||||| ||||| ||||||||||||||||| ||  | |||||||||||||| ||||| ||||| |   || ||
gcatgaagagtattcgaattccgaattttgttgccttgaatgcttttgttgcgtgggttctaaatttgtaatgtgggattactgttttttcctatattcagGGAGCAAATATACTTGTTGATAATAAAGGATGCATTAAGTTAGCAGACTTTGGGGCCTCCAAGCAAGTGGAGAAGTTG

upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os09g21510.1 (Oryza sativa), 3'ss of exon 5
-----------gtgaattttat---ttcattgatatgcatgctatcttggttctt----tactggcagctgatgttcaagtt-tttattaa-tttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
            |||||| |       || | ||||| ||  ||| ||    |||    | ||         | |||  ||| ||| | || || ||||| || || |||||||| ||||| ||||||||||| |||||||| || ||||||||||| || ||||| |   || ||
gtactcaaaatctgaattctgaacacacaataatatgtat-ttattttaccacttgttgtgctcattatgattattcctgttatttgtcaaattccagGGAGCGAACATTCTTGTTGATAACAAAGGATGCATTAAACTTGCTGATTTTGGGGCATCTAAGCAAGTGGCAAAGTTG

upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 5
lower sequence: AC197029.3_FGT003 (Zea mays), 3'ss of exon 5
----------------gtgaattttatttcattgatatgcatgctatcttggttctttactggcagctgatg---ttcaagtttttattaatttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
                 | ||  |    |    ||| |      |  |||| |   ||    ||  || |||    |  |  ||||   |||||||||| || || |||||||||||||||||||| ||||| |||||||| || ||||||||||| || ||||| |   || ||
gtatgaacactgaagccttaacatataatggcagatctttggctttgcttgttctgttgaatgcttctaatgaaccttgaaattttccaaatttcagGGTGCAAACATTCTTGTAGATAATAAAGGGTGCATCAAACTTGCTGATTTTGGGGCATCTAAGCAAGTGGCAAAGTTG

upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G098828_T01 (Zea mays), 3'ss of exon 5
---------gtgaattttatttcattgatatgcatgct--atcttggttctttactggcag--------ctgatg---ttcaagtttttattaa-tttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
          |||| | |   |   | ||    ||  |    |||| || ||   | |||         || |||   || ||  ||||   || |||||||| || || |||||||| ||||||||||| ||||| |||||||| || ||||||||||| || |||||||   || ||
gtatgcacgttgaagtcttaatatataatgcagatatttggccttgtttgttctgttgcaatgcttattctaatgaacttgaaaattttgccaaatttcagGGTGCAAACATTCTTGTTGATAATAAAGGGTGCATCAAACTTGCTGATTTTGGGGCATCTAAGCAAGTTGCAAAGTTG

upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G09000.1 (Arabidopsis thaliana), 3'ss of exon 5
--gtgaattttatttcat---tgata--tgcatgctatcttggttctttactggcagctgatgttcaagtttttat-taatttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
     ||||||  | |||   | |||  ||| | | |||| |  || ||||   ||   ||  |  | |||| ||| |  | ||||||||| ||||| ||||| ||||||||||||||||| || ||||| || ||||| |||||||||||||| | |||| ||
gtaacaatttttctccatactttataagtgcttacaatctcgagtccttacc--catgagac-tatatgtttctatgttttctcagGGGGCTAATATCCTTGTGGATAATAAAGGATGCATTAAGCTTGCTGATTTTGGTGCATCCAAACAAGTAGCTGAGTTG

upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------gtgaattttatttcattgatatgcatgctatcttggttctttactggcagctgatgttcaagtttttattaatttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
                          | | | | | || |||      | |  | ||||  ||| ||  | | || |||  |  |  |||     |  || ||||||| || || || || ||||||||||||||||| ||||||||||| ||||| || ||||| || ||||| ||||||
gtgctgtctctctttctccccctctctcactctcactt-attctctctcttatt-tcttctttccttcttaggagatgacatgtatttttgacccacatttagGGGGCAAACATCCTCGTCGATAATAAAGGATGCATTAAACTTGCAGATTTTGGTGCTTCCAAGCAGGTTGTGGAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgctatcttggttctttactggcagctgatgttcaagtttttattaatttcagGGGGCCAATATTCTTGTAGATAATAAAGGATGCATAAAACTTGCAGACTTTGGGGCATCCAAACAAGTTGTTGAGCTG
                                           tattaat  putative branch site (score: 2)
                                       tttttatt  CT-rich tract
                              atgttcaagtttttat  TA-rich tract