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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttgttctcttgttgtaatctttatattttttgttagtgtttcttaacgatccaagataatgacagctgtcggcgtgataccctattttgtacc...

Basic information

species Zea mays
transcript GRMZM2G063851_T04
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttgttctcttgttgt-aatctttatattttttgttagtgtttct--taacgatccaagataatgacagctgtcggcgtgataccctattttgtacc
|||||||||||| || |||||||||||||||||||| |||||||||||  |||||   ||||| | ||| || || ||| ||||||||||| ||   |  | |  ||  |     | | |  | ||  | | |   ||  |     
TGATCATGAAGGTGGAAATGTCAGTGCTCATACTGGACATCTGgtaattattgtttctttgttttcaatgttgatttttcttgttagtgttgctaacattgttttaacctgccaccggatcactgctggctgctgcatcatcc---

upper sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttgt-tctcttgttgtaat-ctttatattttttgttagtgtttct--taacgatccaa----gataatgacagctgtcggcgtgataccctattttgtacc
|||||||||||| || || ||||||||||||||||| ||||||||||| ||||| | ||| |||  ||| |  | | ||| |||||||  || |   ||  | |  ||    |  ||||     | || |  || |||   ||        
TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTGgtaatttttgtatttctggtttcaatgcagtttttttcttgttagcattgccactattgttgtaaacctgccaatggatcatttctggctgctacatcat--------

upper sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 13
lower sequence: AT2G44350.2 (Arabidopsis thaliana), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgta-atatttgttctcttgttgtaatctttatattttt----tgttagtgtttcttaacgatccaa--gataatgacagctgtcggcgtgataccctattttgtacc
|||||||||||| || ||||| |||||||| |||||||| ||||||  ||| |  ||||    ||| |  |||| |   ||    |    |   ||  ||| | | |    | |||  |    |||    ||                  
TGATCATGAAGGTGGAAATGTTAGTGCTCACACTGGTCACCTGgtatgtatatactctccatgtgtcaattttaaaggattgacctacctgaagtttctaatggttcttttgctaaaaattcttgttcatgtag----------------

upper sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 13
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaa-tatttgttctcttgttgtaatct-ttatattttt-tgt-tagtgtttcttaacgatccaagataatgacagc-tgtcggcgtgataccctattttgtacc-------------------------------------------------------------------------------------------
|||||||||||||||||||||||||||||| ||||||||||| |||| |     |    | ||| ||||   ||| ||     ||| || | ||  |  |    | | | ||| | ||   | |   | |||     | |  || |                                                                                             
TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgtatttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag

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|78179069|gb|DV549442.1|DV549442
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
EST: gi|31364242|gb|CD448597.1|CD448597
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
EST: gi|6964715|gb|AW433408.1|AW433408
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
EST: gi|76010585|gb|DT937755.1|DT937755
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
EST: gi|7145414|gb|AW506895.1|AW506895
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
EST: gi|67040702|gb|CO466957.1|CO466957
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GNTGGGAGTGCTCTGTCAGATCCTTTATCTT-CTTTCGCAGCGGCTCTTAA
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTT-ATCTTTCTTTCGCAGCGGCTCTAAA
EST: gi|116825307|gb|EC869024.1|EC869024
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG                         GTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaatatttg ... ccacatgcagGTTGGGAGTGCTCTGTCAGATCCTTATCTTTCTTTCGCAGCGGCTCTAAAT