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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCATGGCGGTTCACGTGCTGCTGAGTATTTGAAGGAGCATTTGTTTGAGAACCTCATGAAACATCCAGAGTTCATGACAAACACAAAATTAGCAATAAgtatgaaattgcacatagcatttccagttatccatcgaccatcaagtcacccagtcatcacctgattaatggcaacctgcag

Basic information

species Zea mays
transcript GRMZM2G158818_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158818_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g50970.1 (Oryza sativa), 5'ss of exon 4
GGTCATGGCGGTTCACGTGCTGCTGAGTATTTGAAGGAGCATTTGTTTGAGAACCTCATGAAACATCCAGAGTTCATGACAAACACAAAATTAGCAATAAgtatgaaattgcacatagcatttccagttatccatcgaccatcaagtca-----cccagtcat-----cacctgattaatggcaacctgcag
 ||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| ||||  | ||||  | ||| |      |  |  |||  ||        |  || ||      | ||||| ||||| || |  |||
-GTCATGGTGGTTCACGTGCTGCTGAGTATTTGAAGGAGCACTTGTTTGAGAACCTCATGAAACATCCAGAGTTCATGACAAATACAAAATTAGCAATAAgtatgatattgttcctagctgtaccactagcttcttcaagatcctgttgatatttcttgtgatggagtaaactgatcaatggtaatccacag

upper sequence: GRMZM2G158818_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G08090.2 (Glycine max), 5'ss of exon 4
GGTCATGGCGGTTCACGTGCTGCTGAGTATTTGAAGGAGCATTTGTTTGAGAACCTCATGAAACATCCAGAGTTCATGACAAACACAAAATTAGCAATAAgtatgaaattgcaca-tagcatttccagttatccatcgaccatcaagtcacccagtcatcacctgattaatggcaacct-gcag------------------
 ||||||| ||||| ||||||||||||||||| ||||||||| | ||||| || ||| |||| |||||| | ||  ||||| |  | ||||| || |||||| ||   ||||    |  |||||    | ||  ||    | | |  ||      | ||    | |||| | |  |  | |                     
-GTCATGGTGGTTCTCGTGCTGCTGAGTATTTAAAGGAGCATCTTTTTGATAATCTCTTGAAGCATCCAAATTTTTTGACAGATGCCAAATTGGCTATAAgtgtg--tttgctttctctcatttattttcatgaatgtctcgtaatatcttttgtttatttgtttattatttgttattttgttaatgctttcatgtgtgttc

upper sequence: GRMZM2G158818_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA14G31890.1 (Glycine max), 5'ss of exon 5
GGTCATGGCGGTTCACGTGCTGCTGAGTATTTGAAGGAGCATTTGTTTGAGAACCTCATGAAACATCCAGAGTTCATGACAAACACAAAATTAGCAATAAgtatgaaa------ttgcacatagcatttccagttatccatcg-accatcaa--gtcacccagtcatcacctgattaatggcaacctgcag---------
 |||| || ||||| ||||||||||||||||| ||||||||| | ||||| || ||| |||| |||||| | ||  ||||| |  | ||||| || |||||| ||         |  ||  ||   |   || |    ||| | |  |||    ||     | |  | |  |  ||||||     |||            
-GTCACGGTGGTTCTCGTGCTGCTGAGTATTTAAAGGAGCATCTTTTTGATAATCTCTTGAAGCATCCAAAATTTTTGACAGATGCCAAATTGGCTATAAgtgtgtttgctttttctcatttattttcgtcaatgtctcattgtaatatcttttgtttattatttgttattttgttaatgctttactgtgtgttccaaca

upper sequence: GRMZM2G158818_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv16s0050g02570.t01 (Vitis vinifera), 5'ss of exon 4
GGTCATGGCGGTTCACGTGCTGCTGAGTATTTGAAGGAGCATTTGTTTGAGAACCTCATGAAACATCCAGAGTTCATGACAAACACAAAATTAGCAATAAgtatgaaattgcacatagcatttccagttatccatcgaccatcaagtcacccagtcatcacctgattaatggcaacctgcag-------------------------
 ||||||| ||||| |||||||| |||| ||||||||||||| | ||||||||  | ||||| |||||||||||||||||||| || ||||| || ||||||  ||  ||     |   |  ||   | |    |    ||| |  |   |    ||| | | |  |  ||      || ||                         
-GTCATGGTGGTTCTCGTGCTGCGGAGTTTTTGAAGGAGCATCTCTTTGAGAATTTGATGAAGCATCCAGAGTTCATGACAAATACCAAATTGGCTATAAgt--gagtttaagttttctaactc---tcaattgttatgcatgattttttctgtgcattatcaggattgtgtt--tttgtagcgtatccttttggtgtcacagtttt

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|40336318|gb|CK370388.1|CK370388
EST:     GAACCTCATGAAACATCCAGGGTTCATGACAAACACAAAATTAGCAATAA                         ATGAAACATATAGGAAGACCGATTCAGAGTTCTTGGATGCTGAAAGGAATT
genomic: GAACCTCATGAAACATCCAGAGTTCATGACAAACACAAAATTAGCAATAAgtatgaaatt ... caacctgcagATGAAACATATAGGAAGACCGATTCAGAGTTCTTGGATGCTGAAAGGAATT