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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA

Basic information

species Zea mays
transcript GRMZM2G057576_T01
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 23
gtatataa-ttatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
||||  || || ||||| ||| |  |||   |   |||| ||| |||     || || ||    | | || | | ||||   |||   | ||  |||| || |  ||| ||||||||||| |||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||||||||||||||||||||||| || || 
gtatgcaaattgtttttattcttcataccttttaattttatttcttctgaatctttaaatcc--atctattgattgctta--catagaa-atcgatttgaattgccagGTATGTGGTTGAAAGAATGGATGGTGATCTGTGGGATAAAGTTCTACAGCCTGAAAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCTACGGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 23
gtatataa-ttatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
||||  || || ||||| ||| |  ||||  |   |||| ||| |||     || || ||    | | || | | ||||   |||   | ||  |||| || |  ||| ||||||||||| |||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||||||||||||||||||||||| || || 
gtatgcaaattgtttttattcttcatacttttaa-ttttatttcttctgaatctttaaatcc--atcgattgattgctta--catagaa-atcgatttgaattgccagGTATGTGGTTGAAAGAATGGATGGTGATCTGTGGGATAAAGTTCTACAGCCTGAAAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCTACGGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 22
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgt-cacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
                      |||  || ||  | ||  |  ||    | ||||| ||  | | |  ||| |    || | |  | | ||||   ||   ||| ||||||||| |||||||| |||||||||||||| ||||| ||||||||| | ||||| |||   || ||||||||||| ||||| || || || || || || 
----------------------gtttgtggtgtatatttatatttttttttctctaaatgattatccttggattcaatgcttacatgctcata---ttgggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATACCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 23
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaattt-----cagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
       | ||   |   ||   |||  || |   | | |||||    |||||  ||  |   |   |    ||  |   |||     || | | ||| | |||     ||||||||| ||||||||||||||||||||| |||||| |||||||||| | ||||| |||||||||||||||||||| ||||| || || || || || || 
-------agtacactccgtcacttta--gaggagctctatttgt---ggtccttaatccaccaaatcaattttctttaattcaacattcacatacttatattttgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 23
gtatataattatttttgttcctgttact---gatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtca-tgt-cacataaat---ttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
             |      | || |||   || |   | | |||||     ||||  ||| |   |   |    ||  |    || ||| |||||   |   ||   ||  ||||||||| ||||||||||||||||||||| |||||| |||||||||| | ||||| |||||||||||||||||||| ||||| || || || || || || 
------------ctgcacctccgtcactttagaggagctatatttgt---gatccttaatacaccaaatcaattttctttaatacaatgttcacatgcttatattgtgatgacagATATGTTGTTGAGAGAATGGATGGTGATTTGTGGGCTAAAGTTCTTGATCCTGATAATGAATATAGAAGGCAACTTATTGATCAGGTTGTATCTACTGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
                      |||  || ||  | ||  |  ||    | |||||  || | | |  ||| |    || | |  |  | || |||    ||| ||||||||| |||||||| |||||||||||||| ||||| ||||||||| | ||||| ||||  || ||||||||||| ||||| || || || || || || 
----------------------gtttgtggtgtatatttatattttt--ttctctaagtaattatccttggattcaatgcttacat-gcttatatt-gggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 21
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatt--taaaattt----cagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
                              ||   | |  ||  |  ||   ||  | ||||    ||||  | | ||||     |||  | | ||  | |  |||    ||||||||| || ||| | ||||||| ||| || ||||| ||||||||| | ||||||||||| |  ||||||||  | ||||| |||||||| || || || 
-------------------------gtgtgtgtactgtccttcattaaggtgtcattgtatttcataatg-ttagtttgggacactcatgttatttcttgatgtttgtatcagATATGTCGTGGAGCGTATGGATGCTGACCTCTGGGAGAAAGTTCTTAATCCTGAGAATGAGTTCAGAAGGCAGTTGATTGATCAAGTGGTGTCCACTGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 23
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
                     | |||   ||  |||  |    |||  ||       | | ||   | |   | | ||| | ||   ||| || |||  ||||  || ||||| || ||||| ||||||||||||||||||||||| |||||  |     | ||||| |||||||| || || ||||||||||| || || || || 
------------------gtattttatc-attacttacgaaaattcttgttactctcacaatggtgactttgtagtttgttaat---acacaagttttcaattgtagGTATGTAGTGGAGAGGATGGATGGTGATCTGTGGGATAAGGTTCTCGATGAAAACAATGATTATAGAAGACAGCTTATTGACCAAGTTGTGTCTACTGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
   | |  ||||  | | |  || |   || | ||||  ||      |  |||  | || ||    | || |    |   |  | || | |   |||   |||  ||||||||||| || || ||||||| ||| || ||||| |||||||||   || || || || |||||||||||||| ||||| ||||| || || || || 
--gtttgtttatcat-gctgatggttaagaggtctttgcttcacataaagcctgcagatttt---tattgacctatt--attttttcccttttttttgttatt--agATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 23
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaat-ttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
                     ||| |||  ||  |  |    | |  | |    |||  || ||   ||      | ||| |    |  | | ||  |   ||||||||||||| ||||| || ||||||  |||||| ||||| ||||||||| | ||||| ||||| |||||||| || |||||||| ||||| || || || || 
------------------gtttgtgact--tgtttacttcccgatatattatcatatgcatggattcatttggtacatggacgctacttacacatacttccatttcagATATGTAGTTGAAAGGATGGATTCTGATCTCTGGGAGAAAGTTCTTGACCCTGATAATGATTATAGAAGACAGCTCATTGATCAAGTAGTATCTACTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA
                              atgtcacataaattta  TA-rich tract