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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGGCCGCCCGGTCACCGAGCCCGACGGCGGGGGCTATTACGCGCTCCAGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctctccccccgctcccgtgccccctccaacgcctcgcaatttggccttctatttgtagacgttcgttttgcgttgctattgggggatttggggt...

Basic information

species Zea mays
transcript GRMZM2G024437_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024437_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g43680.1 (Oryza sativa), 5'ss of exon 1
GGAGGGCCGCCCGGTCACCGAGCCCGACGGCGGGGGCTATTACGCGCTCCAGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctctccccccgctcccgtgccccctccaacgcctcgcaatttggcct-tctatttgtagacgttcgttttgcgttgctattgggggatttggggt--------
|||||||| ||||||||| ||||||||||||   |||||  ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||  || | | ||    |||||      | | | || ||||| |||||||    ||   ||||| ||||   ||||| | ||||  | ||||||||||          
GGAGGGCCACCCGGTCACGGAGCCCGACGGCCTCGGCTACCACGCGCTCCAGTGGGCCGCCCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttttcccccctcctgcttcccg------cccgagcgtctcgcgatttggctggccttcgtgtagtcgttg--tttgc-tagctagcgagggatttgggtgggggtttg

upper sequence: GRMZM2G024437_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA17G11600.1 (Glycine max), 5'ss of exon 1
GGAGGGCCGCCCGGTCACCGAGCCCGACGGCGGGGGCTATTACGCGCTCCAGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctctccccccgctcccgtgccccctccaacgcctcgcaatttggccttctatttgtagacgttcgttttgcgttgctattgggggatttggggt----
 |||||  |||| ||| |||||||||||||   |||||| |||||||| ||||||||||| || |||||||||   ||||| || ||||||||| | ||||||      ||     | |    |||     |        |   |  | | |   |||   |   |  | |||||||      | ||     ||     |    
AGAGGGTTGCCCCGTCTCCGAGCCCGACGGTTTGGGCTACTACGCGCTTCAGTGGGCCGCACTTAACAACCGCACTGCCGCTGCTCAGTACATCATTGAGgttctttgatcggtttgttgaattgcgtttgctttgcttacttgagcttgtcccttatgcat---cccttgttttgc-cactcactgaatcgttactatttgtt

upper sequence: GRMZM2G024437_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA13G23230.1 (Glycine max), 5'ss of exon 1
GGAGGGCCGCCCGGTCACCGAGCCCGACGGCGGGGGCTATTACGCGCTCCAGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctctccccccgctc--ccgtgccccctccaacgcctcgcaatttggccttctatttgtagacgttcgttttgcgttgctattgggggatttggggt
 |||||  |||| |||||||||||||||||   ||| || |||||||| |||||||| || |||||||| |||   ||||| || ||||||||| | ||||||      ||     | |     |||    ||       ||     |||     |   | | |  | |    | ||   |||  | | |  || ||     
AGAGGGTTGCCCCGTCACCGAGCCCGACGGGTTGGGATACTACGCGCTTCAGTGGGCTGCTCTCAACAATCGCACTGCCGCTGCTCAGTACATCATTGAGgttctttgatcggtttgttgaattgtgtttgctttgcttactt-tgcttttattgtgcttgtttgaatgcgtatgttattttggcactcgctgaattacta-

upper sequence: GRMZM2G024437_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA17G11600.2 (Glycine max), 5'ss of exon 1
GGAGGGCCGCCCGGTCACCGAGCCCGACGGCGGGGGCTATTACGCGCTCCAGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctctccccccgctc--ccgtgccccctccaacgcctcgcaatttggccttcta-------tttgtagacgttcgttttg-cgttgctattgggggatttggggt--
             ||| |||||||||||||   |||||| |||||||| ||||||||||| || |||||||||   ||||| || ||||||||| | ||||||      ||     | |     | |    ||       || |   ||   |||| |        | | | | |  ||  |    |||| ||||| |   | |    |   
------------CGTCTCCGAGCCCGACGGTTTGGGCTACTACGCGCTTCAGTGGGCCGCACTTAACAACCGCACTGCCGCTGCTCAGTACATCATTGAGGTTCTTTGATCGgtttgttgaattgcgtttgctttgcttacttgagcttgtcccttatgcatcccttgttttgccactcactgaatcgttactatttgtttactccaagaaa

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|211308634|gb|FL245981.1|FL245981
EST:     AGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAG                         CATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCAC
genomic: AGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctct ... atttgaatagCATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCAC