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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggaactatttactgagtatcaattgtagcttcttgacaattgacattcttctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG

Basic information

species Zea mays
transcript GRMZM2G136296_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 2
----tggaactatttactgagtatcaattgtagcttcttgacaattgacattcttctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
    | |     || |     ||| |||| ||  |||||           ||   |||  || | |  |||   | ||     |     ||  || ||||  ||||||| ||||||||||| ||||| || ||||| ||||||||||| |||||||| ||||| ||||||||||| |||
tttctcgtgtagttcaaaacttatgaatt-ta--ttcttattctccagtctttccctccctttt-tgctttatgtattgaaactaaaactttgtgctgctcaagGCTCGCCGTGGTGGAGTGGATGAACCATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 2
--------------tggaactatttactgagtatcaattgtagcttcttgacaatt---gacattcttctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
              | ||  | ||| |   | || ||||  | |   |  | ||||   | |  | |  | ||| || |||| ||  |||||   || ||| | |    |  | ||||| ||| | ||||| || || ||||| ||||||||||||||||||||||||||||||||||||||||||||||||
gtacttttagttatttgactttttttcattggattaatta-atcaattaaataatttaaggctctgtgttaattgctttagtgttgtttttt---ttttttttgcgaattattgtagGCGCGTAGAGGTGGTGTGGACGAGCCTTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------------------tggaactatttactgagtatcaattgtagcttcttgacaattgacattcttctcatttctctagttttcatttttcgct-----tgtttattcatggtgcta--tagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
                                                                                 |   | | ||| | | ||   ||||      |  ||| |||||   ||  |   | ||||   || || |  || || |     | ||| || |      |   ||||| ||| | ||||| || ||||||||||||||||||||||| |||||||||||  ||||||||||||| ||||||
gtaattttacttgattcatggatattttgttgtaactatgaactgaaattgttttgaaatgcttctgtatcgattttgtgttaataatgttttccgtgttctaatttcgaaat--tgaaaattgctttttgtgctacttctggggtgtttacattacgttaaagctctttgtttaaaaaatttgctagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCATGGGAAAGTAGAGAGTTTCTACGGAAGCTCTGCATTGGGAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 2
--------------tggaactatttactgagtatcaattgtagcttcttgacaattgacattctt---ctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
              | ||  | ||| |   | || ||||  | |   |  | |||| | |   ||    | ||| || |||| ||  |||||   || |||    || |||   ||||| ||| | ||||| || || ||||||||||||||||||||||||||||||||||||||||||||||||||||||
gtagttttagttatttgactttttttcattggattaatta-atcaattaaataatttaaagctttgtgttaattgctttagtgttttttttttttttttttgcgaattgtg--gtagGCGCGTAGAGGTGGTGTGGACGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------------tggaactatttactgagtatca-attgtagcttcttgac---aattgacattcttctcatttctctagttttcatttttcgcttgtttattcatggtgct--atagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
                                                                              | |   | | |  ||  |  |  ||| ||  |||   |    || ||   |   |   | | ||   || || |  ||    || ||| || |      |  |||||| ||| | ||||| || |||||||||||||| |||||||| |||||||||||  ||||||| ||||| ||||||
gtaattttacttggttcatggaattgaaattgctgtgactgtgaattgaaattcttttgaaattctgttgtaccgattttgtggtttatgatgttttccgtattctaatttcaaaattgaaaatgctttctgtgctactgctgaggtgtttacattaaagttctttgtttaaaaattttgatagGCGCGTAGAGGTGGTGTAGATGAGCCGTTTGCGTGGGAAAGTAGAGAGTTTCTACGGAAGCTTTGCATTGGGAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G07350.2 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------------------------------------------------------tggaactatttactgagtatcaattgtagcttcttga-caattgacattcttctcatttctctagttttcatttt---tcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
                                                                                             ||    | ||   |   ||    || |    |||| | |    ||   | || |  ||| |     ||  || |    | | |||||| ||| |     | ||||||||  | || ||  | |||||||| |||||||||||||||| ||| ||| ||||||| || |||||||| |||
gtgagttttaatctcaagttttttttaccagatattagtgtttgaaacaaaagcttgtgatcatcacaaccaatcaaaaaatctttttgatattgatttttttcttttcatactgcttatgaagtcttaaaccgcagattatattattttttgttggaattaaatgtcatgttgtttgttttttcct--ctttttagGCTCGCAGAGGAGGTATAGATGAGCCTTTTGCATGGGAAAGCAAAGAATTTTTGAGGAAACTTTGCATAGGAAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G61780.1 (Arabidopsis thaliana), 3'ss of exon 2
--tggaactatttactgagtatcaattgtagc----ttcttgacaattgacattcttctcatttct--ctagttttcatttttcgc-ttgttta--ttcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
    |   | || |   || ||   || |  |     | || || |   | | | |||   ||  |  ||| || | || |||| | ||||||   ||     || |  |||||||  | || ||  | |||||||| ||||||||||||||||| |||||||| |||||||| ||||| || |||
gtcagctttgttaaaaaagcattccttttcacaactctttttactaacaaaagttttcaatttcatagctacttattatgtttctcattgtttggtttgcctttgtttcagGCTCGCAGAGGAGGTATAGATGAGCCTTTTGCATGGGAAAGCAGGGAGTTTCTAAGGAAGCTTTGCATTGGAAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 2
----------tggaactatttactgagtatcaattgtagcttcttgacaattgacattcttctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
            ||||  |||  |  || |||  |||   |  |  |   |    |||   || ||  ||     | || ||||   ||   | |||| |        |||| ||| | ||||||||||||||||||||||||||||| |||||||||| | | |||||||||||||| || |||
ggattttgttaagaacattttgttttgt-tcagctgtga-taataaatggtattgattagacttatgactgggagtctctttttctcctctctcattcct--------agGCCCGTAGGGGTGGAGTTGATGAGCCGTTTGCATGGGACAGCAGAGAGTATTTAAGGAAGCTCTGCATTGGAAAG

upper sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 1
--tggaactatttactgagtatcaattg--tagcttcttgacaattgacattcttctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
  ||| | || | |      |    ||   |   ||||  | | |  | | |||| |  | |  |  |   | ||||||   |||  |||  || |  |||||||| ||| | |||||  ||||||| || ||||||||||| || ||||||| | ||||||| ||||||||||| |||
tttggcattactaataccacactttttaaatgaattctctatattccatactcttattctgtaccctgacctgattttt---ttgaatatctattg-actatagGCCCGTAGAGGTGGTATTGATGAACCATTTGCATGGGATAGTAGAGAGTATTTGAGGAAACTCTGCATAGGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcttctcatttctctagttttcatttttcgcttgtttattcatggtgctatagGCTCGTCGTGGTGGAGTTGATGAGCCGTTTGCATGGGAAAGCAGAGAGTTTCTGAGGAAGCTCTGCATAGGGAAG
                tagttttcattttt  TA-rich tract