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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAGgtaatattgcatactgatatgctgtgtcgatattctcttctgttcctatatgttgacgccgatttgggtgatcccttttttagtcaacactatgattttg...

Basic information

species Zea mays
transcript GRMZM2G079256_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079256_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 5'ss of exon 8
CTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAGgt----aatattgcatactgatatgctgtgtcgat-attctcttctgttcctatatgttgacgccgatttgggtgatcccttttttagtcaacactatgattttg
 |||| ||||||||||| | ||| || ||||||||| |||||||||||||||| ||||   | |||||||| |||||||||||||| |||||||||||||||    || | |   | ||  |   ||||  | || ||| | |||| || || |     |  |  |||||     |  | |  |    ||  || | |  ||   
TTGCTGGAGACATCAAGAAAAGGGTATCTTGCTGCAGTTTCAGCATCTAGTTACTCTTTCATCTCTTTACTCCAACACTTCCTTCCTATAATGAATCCAGgtatcaaacaatctttgctagtgctctgtaactattattattttctctttctgttca--ggtgtggatttttaaaaatcatgctactttct-caatttatttg--

upper sequence: GRMZM2G079256_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA11G10770.1 (Glycine max), 5'ss of exon 8
CTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAGgta-atattgcatactgatatgctgtgtcgatattctcttctgttcctatatgttgacgccgatttgggtgatcccttttttagtcaacactatgattttg
 || | ||||||||  ||| |||||| ||||||||||| || ||||||||||| || ||||||||||||||  | || || ||||| ||  |||| ||||| |  | |   ||  |  ||    |  || ||  | ||     ||| ||  |    |   |  |||   |  | | ||| | | |      ||        
TTGTTGGAGACATCTCGGAAAGGATATCTTGCTGCAATATCTGCATCTAGTTACTCCTATGTTTCTTTACTCAAGCATTTTCTTCCAATCTTGAACCCAGgcatgtctcttatcttattaaagggcttccattatatcac---ttcatacttccgcatatcattttatcttttacttttatgatttgtttttag-------

upper sequence: GRMZM2G079256_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA12G03060.1 (Glycine max), 5'ss of exon 9
CTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAGgtaatattgcatactgatatgctgtgtcgatattctcttctgttcctatatgttgacgccgatttgggtgatcccttttttagtcaacactatgattttg-
 || | ||||||||  |||  || || ||||||||||| || ||||||||||| || ||||||||||||||  | || || ||||| ||  |||| ||||| |    ||| |  |    |  |    ||   |||  || | || ||  ||  |  | || ||     |  |  |||||    | |  | | || ||||  
TTGTTGGAGACATCTCGGAATGGGTATCTTGCTGCAATATCTGCATCTAGTTACTCATATGTTTCTTTACTCAAGCATTTTCTTCCAATCTTGAACCCAGgca----tgcctcttatcttattac--cgggtttccattatattacttcatacttccacctatc---attttatcttttacttttatgatt-tgtttttag

upper sequence: GRMZM2G079256_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv08s0007g06390.t01 (Vitis vinifera), 5'ss of exon 8
CTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAGgtaatattgcatactgatatgctgtgtcgatattctcttctgttcctatatgttgacgccgatttgggtgatcccttttttagtcaacactatgattttg-----------------------------------------------------------
|| || ||||||||||| |  ||||| ||||| || ||||| ||||| |||||||| | ||||||||| ||  | || ||||| || |||||||||||||||| |||| | || |    |  ||| | | | || ||   | || || |   || |       ||   |  |||  ||||   |   | ||   || ||                                                            
CTCCTGGAGACATCAAGAAAGGGATATCTTGCAGCTATTTCTGCATCAAGTTATTCCTTTGTTTCTTTGCTCAAGCATTTCCTCCCAATAATGAATCCAGgta-tatttcctattccctttttgttttg-tcttttcaagtttttct-tgctttcaatttatctttattcttcctcttttgtttttcccctcaaatcttcacaatgtgccatgaatcaatgttattggcagaatttaagcttcggtcttgattttacag

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|60345537|gb|DN212510.1|DN212510
EST:     TTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAG                         GAGGTGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAGGATAATTCCTG
genomic: TTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCATAATGAATCCAGgtaatattgc ... tttgcaggagG---TGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAGGATAATTCCTG
EST: gi|31356068|gb|CD440425.1|CD440425
EST:     TTCCTTCCCATAATGAAAATCCAGA                         GTGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAAGATAATTCC
genomic: TTCCTTCCCATAATGAA--TCCAG-gtaatattgc ... tttgcaggagGTGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAGGATAATTCC
EST: gi|31356068|gb|CD440425.1|CD440425
EST:     TTCCTTCCCATAATGAAAATCCAGA                         GTGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAAGATAATTCC
genomic: TTCCTTCCCATAATGAA--TCCAG-gtaatattgc ... tttgcaggagGTGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAGGATAATTCC