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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgttttttcatctgtcaggctgatttgtgcaatccaatatttgtttaatatgataatctgaatatttgtttaatattactgttctttcatcttatgctttcaaataatttgaattgtttgcaatttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCGGTGTACTTGGTTGCTGACTATGTCGAAGT

Basic information

species Zea mays
transcript GRMZM2G399073_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 5
gtattgttttttc------atctgtcaggctgatttgtgcaatccaatatttgtttaatatgataatctgaatatttgtt----taatattactgt---tctttcatcttatgctttcaaataatttgaattgtttgcaatttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCGGTGTACTTGGTTGCTGACTATGTCGAAGT
|||||  |  ||       || | ||     | | |||| | ||   |  |       ||  || ||||   | |||||      ||| ||||       | || | ||||  |||   | | ||   ||||  ||| |||||||  ||||||||||| |||||||||||| |||| |||||||||||||| ||||| || || |||||||| ||||| || || |||||||||||||||||||| |||||
gtattactcctttgtactgatttctcttaaagttatgtgtattctcttgctaaaactttagtattatctatttgtttgtaaagagaattttaccaagtgccatttaacttaaactt--gagtgataccaattccttgaaattttt--gcagCTTTTGTGGAAAAGATGCAGACTGGGGGTGACCTCAATCTCATTGGGCAATTCGGTGTTGGTTTCTATTCAGTATACTTGGTTGCTGACTATGTTGAAGT

upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 5
gtattgttttttcatctgtcaggctgatttgtgcaatccaatatttgtttaatatg-ataatctgaatatttgtttaatattactgttctttcatcttatgctttcaaataatttgaattgtttgcaatttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCGGTGTACTTGGTTGCTGACTATGTCGAAGT
                                                    |||| ||  | ||     ||| | ||   || | ||   |  |  | || ||   ||  || | |||||   ||  | ||  | |||| ||||| || ||||||||  |  | || || |||||||| ||||| |||||||| || ||||||||||| || ||  | || |||||||||||||||| 
--------------------------------------------------ggtatgtatgttgtggcacattgctgaa--gtagtttttgcttgtaatgtggttgggaa-gatgttaattgga-gctgtgttaattcaGCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTCGTGGCTGACTATGTCGAAG-

upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 5
lower sequence: EFJ28825 (Selaginella moellendorffii), 3'ss of exon 5
gtattgttttttcatctgtcaggctgatttgtgcaatccaatatttgtttaatatgataatctgaatatttgtttaatattactgttctttcatcttatgctttcaaataatttgaattgttt--gcaatttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCGGTGTACTTGGTTGCTGACTATGTCGAAGT
                                                                                    || ||||| |    | |||| || |   |||||    ||      || ||||| ||| ||| |||||||||||||||| ||||||||| | ||| | ||||| |||||||| || || |||||||||||||| ||||| || || || ||||| ||
------------------------------------------------------------------------------------gtgctttctttgactcctttgaattttgttgaacaactttgatgtttcttttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT

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|148965480|gb|EE016290.2|EE016290
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAG                         CTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
EST: gi|56538364|gb|CX054073.1|CX054073
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTTAG                         CTTTTGTGGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
EST: gi|149004856|gb|EE039364.2|EE039364
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAG                         CTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
EST: gi|24767582|gb|CA402726.1|CA402726
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAG                         CTTTTGTGGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
EST: gi|31360086|gb|CD444443.1|CD444443
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAG                         CTTTTGTGGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
EST: gi|148964727|gb|EC905993.2|EC905993
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAG                         CTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
EST: gi|149112828|gb|EE295636.2|EE295636
EST:     GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAG                         CTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT
genomic: GGAGGATCTTATTAATAACCTTGGAACCATTGCTAAGTCTGGCACTTCAGgtattgtttt ... ttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttctttcatcttatgctttcaaataatttgaattgtttgcaatttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCGGTGTACTTGGTTGCTGACTATGTCGAAGT
                                            tttttttgc  CT-rich tract
                      aaataatttgaattgt  TA-rich tract