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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatttagtgctttgggtgtacaaatatatccttctgttcatgtttataaaaataaaggattgctgctgttatttctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG

Basic information

species Zea mays
transcript GRMZM2G458549_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G458549_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g61710.1 (Oryza sativa), 3'ss of exon 4
------gtttgatttagtgctttgggtgtacaaatatatccttctgttcatgtttataaaaataa-aggattgctgctgttatttctcctgt-tagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG
       |||||| |  || ||||||  | |    |  |||   |  | |   |  |||   | | | ||||||   |||| || ||| | | |||| |||||||| |||||||||||||||||||||||||||||||||||||||||||||||| | ||||| ||||| || ||||||
gtatatttttgatattttgttttggg-attctttcacttccaaataataagcatgttaagtttgacatgattgcg--tgttgttactcttatgtagGATCTGGACTTTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAGTTCTTGAGAAAAATTTCCCAAAG

upper sequence: GRMZM2G458549_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G03990.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------gtttgatttagtgctttgggtgtacaaatatatccttctgttcatgtttataaaaataaaggattgctgctgttatttctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG
                                                                       ||  || | || || |    |     | | ||   || ||| |||   ||| |   ||||||     ||  |  ||| |  |   ||| |||||||| |||||||| ||||| |||||||| ||| | ||||||||||| ||||      ||||    ||||| ||||||
gtgtgttcattagttcattagaaatgtgctgctaaggacatgcaaatttacctctaagttaatgttgatcattatatctggttctctattagagatgaca-atttgtccgttgatggcaatagattaaaaggaaaagagcaatattttttttttgcagGTTCTGGACTATCAAGCTCTGCAGCGTTTGTCTGCTCATCCACAATTGCTATTATGGCTGCTTTTGATGTGAACTTCCCAAAG

upper sequence: GRMZM2G458549_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G36610.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------------gtttgatttagtgct---ttgggtgtacaaatatatccttc--tgttcatgt-ttataaaaataaaggattgctgctgttatttctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG
                                                                          ||  || | |  ||   || |   |   ||| | ||| |   ||   ||   ||| ||  | ||||         |  | | | || |   ||| |||||||| |||||||| |||||||||||||| ||| | ||||||||||| ||||      ||||    ||||| || |||
gtgtgttcattagttttgaattagaatggtgctgctaaggacatgtaaatttacctctaagttaatgttgatcattatatcttgatctctattagagatgacaatttgtccgttgatggcaataaattaaaaggaaaaagagcaataatttatttatttctttacagGTTCTGGACTATCAAGCTCTGCAGCATTTGTCTGCTCATCCACAATTGCTATTATGGCTGCTTTTGATGTGAACTTCCCGAAG

upper sequence: GRMZM2G458549_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtttgatttagtgctttgggtgtacaaata--tatc-cttctgttcatgtttataaaaataaa---ggattgctgctgttatttctc--ctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG
     |      |  | |||  ||   | ||| |  ||||  |||   | | |||||| |   ||         ||   |||   | ||||   | ||||| |||||  ||||||| || || |||||||| || ||||||||||||||||| ||||   || |||   | ||||||   |||
gtatatgcatcatgatacttacggaacagaaaaacttatcatttcaaataaagtttatcagtttactttcaagctgtaactggagtgtctcgatttttagGTTCTGGGTTGTCAAGTTCTGCTGCATTTGTTTGCTCAGCAACAATTGCTATTATGGCTGTCTTTGGTCATAACTTTGAGAAG

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|32806294|gb|CD958528.1|CD958528
EST:     GGGCAAACCTGTTGCGCTTGACGTCGTTGTTGATGGCACAGTTCCTCAAG                         GCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTA
genomic: GGGCAAACCTGTTGCGCTTGACGTCGTTGTTGATGGCACAGTTCCTCAAGgtttgattta ... ctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTA
EST: gi|74244484|gb|DT652398.1|DT652398
EST:     GGGCAAACCTGTTGCGCTTGACGTCGTTGTTGATGGCACAGTTCCTCAAG                         GCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTA
genomic: GGGCAAACCTGTTGCGCTTGACGTCGTTGTTGATGGCACAGTTCCTCAAGgtttgattta ... ctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTA
EST: gi|108824283|gb|EC278291.1|EC278291
EST:     GGGCAAACCTGTTGCGCTTGACGTCGTTGTTGATGGCACAGTTCCTCAAG                         GCTCTGGACTGTCAAGCTCAGCAGCCTTTGTCTGTTCAGCAACAATTGCTA
genomic: GGGCAAACCTGTTGCGCTTGACGTCGTTGTTGATGGCACAGTTCCTCAAGgtttgattta ... ctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttctgttcatgtttataaaaataaaggattgctgctgttatttctcctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG
                                    ctgttatttctcct  CT-rich tract
     tgttcatgtttataaa  TA-rich tract