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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttctttttgtctctgttggacctctattgttttgtcaatgttgttgtgcctcttaatttttgttcctgttctctag

Basic information

species Zea mays
transcript GRMZM2G003076_T04
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 5'ss of exon 4
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatt----tctttttgtctctgttggacctc-tattgttttgtcaatgttgtt-gtgcctcttaatttttgttcctgttctctag
||| | |||||||||||||| |||||||||||||| |||||||||||||| ||||||||||| |||||||||||||| |||||||||||||||||  |    |  |||  ||| ||| |  ||   |    |||  ||| ||   || |  |||| |||||| ||    | | | ||||
ATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAGgtgctaggctggtttgatctttgtagttccctgtgacatttcatcagtgcctttagcacctcctaatttgtgaaattttccactag

upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA03G06700.1 (Glycine max), 5'ss of exon 5
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgta---tttctttttgtctctgttggacctctattgttttgtcaatgttgttgtgcctcttaatttttgttcctgttctctag---------------------------------------------------
                                 ||||| ||||| || |||||||||||||| || || |||| ||||||||||||||| |||| |   ||  ||| ||   |  |||   ||  || |||   |         ||    ||||  |   ||    |||  | |                                                     
--------------------------------TCTTGCTTTCTTTACAACATATGCACTTTTGgtcctgttctaggctgagatttattaccaggcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctatgattttcttcttccatggcagtgtgttttgctgattggttttgatgggctaattaccacctgggtgttaaatgcttttgcag

upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgta---tttctttttgtctctgttggacctctattgtt---ttgtcaatgttgttgtgcctctt--aatttttgt-tcctgttctctag--------------------------------------------
||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || ||||||||||||||||||||||||| |   ||  ||| ||   |  |||   ||  || |||   ||| |     || | | | ||||  |  |  ||| |  || |   | |                                            
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag

upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G01360.1 (Glycine max), 5'ss of exon 4
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgta---tttctttttgtctctgttggacctctattgttttgtcaatgttgttgtgcctcttaatttttgttcctgttctctag---------------------------------------------------
||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || |||||||||||||||||||| |||| |   ||  ||| ||   |  |||   ||  || |||   |         ||    ||||| |   ||    |||  | |                                                     
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttattccatggcagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgcttttgcag

upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G26630.2 (Glycine max), 5'ss of exon 4
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgta-----------------------------tttctttttgtctctgttggacctctattgttttgtcaatgttgttgtgcctcttaatttttgtt-cctgttctctag
||  | |||||| |  | || || |||||  | ||||| ||||| || || |||||||| || || || |||||||||||||||||||| |||| |                             |||||||||   |   ||||     |  | |||||      |  || || || | |   |  ||| ||||||    ||
ATTGTCCAACATATCTTACTTGACATGCCTAGTCTTGCTTTCTTTACAACTTATGCACTGTTGGTACTGTTCTGGGCTGAGATTTATTACCAGgcaagttgaattcgtggtgcatttttactgtttttctttttaattagcttgggatgttgctattttggtggcctgattatgactttgatgctacgttacctgtttggcag

upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA02G19410.1 (Glycine max), 5'ss of exon 4
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGg-tatttctttttgtctctgttggacctctat-tgttttgtcaatgttgttgtgcctcttaatttttgttcctgt-tctctag----------------------------------------------------
||  | |||||  |  | || || ||| |  | ||||| ||||| || |||||||||||||| || || |||| ||||||||||||||| |||| || ||   |||||      |   | ||||  || || ||      |  | ||  | ||   ||   |  | || | | | |                                                    
ATTGTTCAACACATCTTGCTTGACATGTCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGgtcctgttctaggctgagatttattaccaggctagtttgatttgtggtgcatttgcttctacatggttggtttgc-ctcctatgatttttttcttccatggcagtgtgttttgctgattggttttgatgggctaattaccacctcggtgttaaatgcttttgcag

upper sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 5'ss of exon 4
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttctttttgtctctgt-tggacctctattgttttgtcaatgttgttgtgcctctta-atttttgttcctgttctctag---------
||  | |||||| |  | || ||||| ||  | ||||| |||||||| || ||||| ||| | || || ||||||||||| ||||||||||||||| ||  |  ||  | | | |||   ||  || ||||||||||| |  | ||  | | | |||||  ||     ||| | |         
ATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAGgtagtttctaatgagtatctatgggtttc--tttttttgtcaatgcttctttggttttgatattttacttaacactcttttgattggacag

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|149112231|gb|EE295139.2|EE295139
EST:     TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
genomic: TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttcttt ... tgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
EST: gi|149081139|gb|EE170248.2|EE170248
EST:     TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
genomic: TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttcttt ... tgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
EST: gi|149109085|gb|EE189999.2|EE189999
EST:     TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
genomic: TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttcttt ... tgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC