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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttgtgttctacataactttgatatatatcagtggctttacgtgacagtttcatttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA

Basic information

species Zea mays
transcript GRMZM2G373175_T01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 10
-----------------gtaagtttttgtgttctacata----actttgatatat--atcagtggctttacgtgac--agtttcattta------tgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
                  | |    | ||| || || ||     ||||| ||| |  | || ||| | || | ||   ||| |||| ||      | || |  ||| ||||||||||| ||||| ||||||||||||||||| ||||||||||| || ||||||||||||||||| |||||||||||||| |||||||| ||||| ||||
gtaagttagatctagttatcatcactggtgatcaacctatgttgctttgttatttctaccaatggatgtatgcgagaaagtatcatctaattggtttttgttgttttcagAGTTCAGTCAATGGAAAAGAAACCAAGATTCCCTTCCCCTGGCTGGTGTTCAATGAGAAGGTGAAGGTGAATTCTGTTTTTCTCCGGGACTCAACGGCTA

upper sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 16
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 16
--------------------------------gtaagtttttgtgttctacataactttgatatatatcagtggctt-tacgtgacagtttca----tttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
                                 |   | | |   |  |||  |  ||| || |     | |   |  | | | | | ||| |    ||  || |   |  |  |||| || || ||||||   | | ||   ||||||||||| ||| |||| || ||||| ||||||||||||||||| || |||||  |||||||||||| ||
gtaagcttctcaaatatctgatgtttttgataatccatctattcttattacccagttttaat-tgggggaatatttaatccattaaattttaaaaatttggtgctgcatcatgtagAGCTCTGTAAATGGTTGTGTACCCCGAATTCCATTCCCATGGTTAGTGTTTAATGAAAAGGTGAAAGTGAATTCAGTATTCCTTAGGGATTCAACTGGTA

upper sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 16
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 16
-------------------------------gtaagtttttgtgttctacataactttgatatatatcagtggct--tta--cgtgacagtttca----tttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
                               |  | |   ||| || || || ||   | | ||  |  | |  |  |||  | | | | ||| |    ||  || |   |  |  |||| || || ||||||   |   ||   ||||||||||| ||| |||| || ||||| ||||||||||||||||| || || ||  ||||||||||||  |
gtaagtttctcttcaaatatctgatgtttttgacaatccatgtattata-atgacccagttttaattgggggaatatttaatcattaaattttaaaattttggtgctgcatcgtgtagAGCTCTGTAAATGGTTGTGTCTCCCGAATTCCATTCCCATGGTTAGTGTTTAATGAAAAGGTGAAAGTGAATTCAGTATTTCTTAGGGATTCAACTGGAA

upper sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 16
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 15
----------------------------------------------------------------------gtaagtttttgtgttctacataactttgatatatatcagtggctttacgtgacagtttcatttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
                                                                        || ||||  |   | |||  | |||  | | | |   |  |||||  ||     | |||||    | | |||   ||| ||| || ||||     ||| | || ||||||| ||| ||| ||||||||||||| |||||||| |||||||| ||||||||||| ||||| |||||| 
gtaagttgctttgctgttccataaagcgttattatgcatatcccatcattgaattcagaattgtaaagaatcaaattttccttcgcaacaagattttcttttcttttcttttctttaattgtggactgcatttc--ctttttttcatagAATTCGGTGAATGCCCGGGAACCTAAAATTCCATACCCGTGGTTAGTTTTCAATGAAAAGGTGAAGGTGAATTCAGTTTTCCTCCGTGATTCCACTGCTG

upper sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 16
lower sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 16
--------------------------------------gtaagtttttgtgttctacataactttgatatatatcagtggctttacgtgacagt----ttcatttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
                                       | | ||||       ||  |||| |||   | | |   |   |  |     || |    ||   ||   ||   ||||| ||| |||||| |||| |  ||||   || |||||||  || ||||||||||||||||||||| | ||||| ||||||||||| |||||||||||||| ||| 
gtaagtttcttcgcccaaattattgtatttgggctactattatttttcacaaagtaattaaccttgtattctcttcctaattgaatacatcaatgcatttttctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211272990|gb|FL022928.1|FL022928
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272993|gb|FL022931.1|FL022931
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272997|gb|FL022935.1|FL022935
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272995|gb|FL022933.1|FL022933
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272996|gb|FL022934.1|FL022934
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272991|gb|FL022929.1|FL022929
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272994|gb|FL022932.1|FL022932
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
EST: gi|211272992|gb|FL022930.1|FL022930
EST:     AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCG                         AGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC
genomic: AATCCATCTCCCTCAAGACAATGGAAGATGGACAGGTTATGCTTTATTCGgtaagttttt ... tcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatatatatcagtggctttacgtgacagtttcatttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
                                          ttatcttttcc  CT-rich tract
                                   atttatgttatctttt  TA-rich tract