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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacctgcatatgtcattatgacactgacatttgccctataaggatatttactgactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT

Basic information

species Zea mays
transcript GRMZM2G337819_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g62810.3 (Oryza sativa), 3'ss of exon 2
gtaacctgcata------tgtcattatgacactgacatttgcccta-taaggatatttactgactaaaat--attttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
||| ||| |||       |  || |||| |||| ||||||||     || |||  ||| |||| |||||   | | ||| |||  || ||||||||||||| || || ||||||||||| |||||||||||||||||||||||  |||||||||||||||| |||||||| ||||| |||||| | ||||||||
gtagcctacattttgcactaacactatggcact-acatttgctgggctagggaactttgctgattaaaactaaatgttttctcgaaagcttcagATTTAGGCCAAGTATGGGGTTGGGGCTATGGAGGAGAAGGGCAACTAGGCCTGGGTTCTAGAATCCGGACTGTTTCCTCTCCACATCCTATCCCGTGCAT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g62810.4 (Oryza sativa), 3'ss of exon 4
gtaacctgcat------atgtcattatgacactgacatttgcccta-taaggatatttactgactaaaat--attttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
||| ||| |||       |  || |||| |||| ||||||||     || |||  ||| |||| |||||   | | ||| |||  || ||||||||||||| || || ||||||||||| |||||||||||||||||||||||  |||||||||||||||| |||||||| ||||| |||||| | ||      
gtagcctacattttgcactaacactatggcact-acatttgctgggctagggaactttgctgattaaaactaaatgttttctcgaaagCTTCAGATTTAGGCCAAGTATGGGGTTGGGGCTATGGAGGAGAAGGGCAACTAGGCCTGGGTTCTAGAATCCGGACTGTTTCCTCTCCACATCCTATCCC------

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G40600.1 (Glycine max), 3'ss of exon 7
-------------------------------gtaacctgcatatgtcattatgacactgaca-tttgccctataaggatatttactgactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                               |||   |  ||     || | || |  ||   |||    | ||| |  |   ||    |  |  || ||||   |  |   ||||||| | || ||||| ||||||||||| |||||||| ||||| || ||||| ||||||||| |  |    |  || || || || |||| | |||       
gttggctcttgtggttacattatgtagttttgtaggttcaatgaagtatgaagatatggaaggtttttgatgtaaagcaagacacctgatgcatcatatttttaccgaagTTTTCAGATGTGGGACAGGTCTGGGGTTGGGGCTATGGAGGTGAAGGACAGCTAGGATTGGGTTCTCGGGTAAAGATGGTATCATCCCCTCATCTTATAC-------

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G16400.1 (Glycine max), 3'ss of exon 6
-------------------------------gtaacctgcatatgtcattatgacactgaca-tttgccctataaggatatttactgactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                               |||   |  ||     || | || |  ||   |||    | ||| |  |   ||    |  |  || ||||   |  |   ||||||| | || ||||| ||||||||||| |||||||| ||||| || ||||| ||||||||| || |    |  || || || || |||| | |||       
gttgcctcttgtggttacattatatagttttgtaggttcaatgaagtatgaagataaggatggtttttgatgtaaagcaagacacctgatgcatcatatttttaccaaagTTTTCAGATGTGGGACAGGTCTGGGGTTGGGGTTATGGAGGTGAAGGACAGCTAGGATTGGGTTCTCGAGTAAAGATGGTATCATCCCCTCATCTTATAC-------

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G34470.1 (Glycine max), 3'ss of exon 5
------------------------------------------------------------------gtaacctgcatatgtc---attatgacactgacatttgccctat--aaggatatttactgact--aaaatatttt-----------ttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                                                   |||  ||   || |     ||    ||      ||||  ||||  |||   | |||   | |  || | || |            ||     |||  ||||||| |||| ||||||||||||||||| ||||| || |||||||| || ||||||||||||||||| ||||  || || ||||| ||||  || || || ||
gtattgactttattatgggctatttgtcaacctaggtctaaaattttatctatgctattttcgtatataatatgataatcttttggttgaagcataactttttgtgctatggaagatcagttatgcattcgaagacatgtcattgattgtaattttctggaagtttcagATATAGGACAGGTGTGGGGTTGGGGCTATGGTGGTGAAGGGCAGCTTGGTTTGGGTTCTAGAATACGAATGGTGTCCTCTCCTCATCTAGTTCCTTGTAT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------------------------------gta-acctgcatatgtcattatgacactgacatttgccctataaggatatttactgactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                                                                         | | | ||   | ||| ||   ||   | |  | |||  | ||||     | | ||| |  ||| || | |       |  ||||||| |||| ||||||||||||||||| ||||| || |||||||| || ||||||||||||||||| ||||  || || ||||| ||||  || || || ||
gtattgactttattatgaactatttgtcaacctaggtctaaaattttatctgttattttcgtatatgatgtgataatcttttggttgaagcagaactttttgtgttat--ggaagatcagttatgcaatctaagacatgtcattgattgtaattttctgt------gagtttcagATATAGGACAGGTGTGGGGTTGGGGCTATGGTGGTGAAGGGCAGCTTGGTTTGGGTTCTAGAATACGAATGGTGTCCTCTCCTCATCTAGTTCCTTGTAT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 5
------------------------------------------------------------gtaacctgcatatgtcattatgacactgacatttgccctataaggatatttactgactaaaatattttttcctccgaaa-cttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                                             |  ||    | |  | |  |     |||    |   |||| | |      ||| |  |     | |  |  || || |  |||||||  ||| | |||||||| |||||| |||||||| |||||||| || ||||||||||| ||||| || |  |||||  |||| |||| ||| || || ||
gtacaggacctttttatggagtatttttacacataaatctaagattttatgtatgttactcttcccattgtgtagcgtggtttggttgaagcatcaactatgatgtctaagacttatcattgattctagttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTTTGGGTTCCAGAATACGCATGGTTTCCACTCCTCATCTTGTTCCTTGTAT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------------------gtaacctgcatatgtcattatgacactga-catttgccctataaggatatttactgactaaaa--tattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                                                      | |   ||      ||||| |  |  || | ||||   |   |  ||| | |||   |  |   || |||||  || |||  | ||||| | || ||||||||||||||||| |||||||||||||| || || || ||||| ||| |  | ||    || || ||||| |||||| | || |||||
gtgagatttttagcttttcacacaccatgtcactaatgaggtacattggttatcaattatgaaaaaaatatcagtggcggtatccattaagctaaagagcttttggtgtgctataataatcacttgatgcatcctaattttttttctgaag-tccagATATTGGACAGGTGTGGGGTTGGGGTTATGGAGGAGAAGGACAGCTTGGATTGGGCTCTCGTGTACGTCTAGTCTCCTCTCCTCATCCTATTCCATGCAT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT3G53830.1 (Arabidopsis thaliana), 3'ss of exon 5
-----gtaacctgcatatgtcattatgacactgacat-------ttgccctataa--ggatatttact-gactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
     ||    |  |    |  |||  |  | || ||        | || | ||   | | ||| | | ||  |  ||  | |||   | |||  |||||||||||| ||| | |||||||||||||||||||| ||||| |||||||| ||||||||  | ||   ||  || || ||||| ||||   |||| ||| |
gtgaagttgaataaacgactttttacaaatccgagatgaagctgctaccttgtagttgaagattcatttgaggatgatcatgtttttacggaagtttcagATTTAGGACAGATTTGGGGTTGGGGATATGGAGGCGAAGGTCAACTAGGATTGGGTTCCCGGATTAAAATGGTGTCATCTCCTCATCTAATACCTTGCCT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 5
----------------------------------------------------------------------------------------gtaacctgcatatgtcattatgacactgacatt-tgccctataaggatatttactgactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                                                                        |||  ||   |||| |   | | ||  ||  || |    | ||| |  |   ||| | |    | | || | | || ||  ||||||| | || ||||||||||||||||| ||||| || || ||||||||||||||||||||  | || || |  || || ||||| |||||||| || ||  |
gtaaatccatgaaatcttggattgttgtccctaagcctcagttttaattcatagttctttttctgttgtggttatgcaacataggctggta--ctcagtatgactagaagccatggaagttctattttgtaaagcaacaaacttaatgttttctattgttcccccaagtttcagATGTTGGACAGGTGTGGGGTTGGGGCTATGGGGGTGAGGGGCAACTAGGTTTGGGTTCCCGGATACGTATGGTATCCTCTCCTCATCCTGTGCCTTGTGT

upper sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv08s0007g00930.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------------------------------gtaac-ctgcatatgtcattatgacact-gacatttgcc-ctata-aggatatttactg---actaaaatattttttcctccgaaa-cttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                                                           || || ||  |||  |   || | || | ||  |  |   ||||  | ||| |||| ||   |  || | |  |  |    | |||  ||||||| | || ||||||||||||||||| |||||||| |||||||| ||||||||||||||| | |        || |||||||| ||||   |||| ||| |
gtaaattctccatcccctgggtcactgcagcccacacaagccacagttttcaggtgtagcaatttcttctttgtggttacactatatagttttgtaggtcatttgaagtacgaagctatggaagatctttaatgtaaagcaagacacctaatttaacaaaagtttcagATATGGGACAGGTGTGGGGTTGGGGCTATGGAGGCGAAGGGCAGCTAGGTTTGGGTTCTCGGACAAAGCTGGTGTCTTCTCCTCATCTCATACCTTGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgccctataaggatatttactgactaaaatattttttcctccgaaacttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
                                tattttttcctccg  CT-rich tract
               atatttactgactaaa  TA-rich tract