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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag

Basic information

species Zea mays
transcript GRMZM2G139038_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g41100.4 (Oryza sativa), 5'ss of exon 2
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag
|||||||||||||||| |||||||||||||||||||| |||||||||||||| |||||  |||||||||| |||||| ||||||||||||||||||||||||||||| | || ||||||||||||| ||  ||||||||||| || |   |||  || |||  ||| ||| |||||||  |||| |   |||   ||||| ||||||||| |        
ATAACCGTGGTGAGTTGAAAATATGTGATTTTGGACTATCTCGTCAATATGGAAGCCCGCTAAAACCTTACACTCAATTGGTTGTGACTTTGTGGTACAGgtaggtctttggtcaacatcagattcatccccagtgttttggcttgccattaa--tttttccattgtgagctctgttta-tcaatct--gacctgccttt-ttgctccttctcag-----

upper sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G27820.1 (Glycine max), 5'ss of exon 4
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag
||||  | |||||  ||||||| |||||||||||  || ||||||| |||||||| || ||||| || ||||| || ||||| || ||| | ||||||||||  ||     |  ||  |     | ||      | |||  ||||    | |   || |     || |  ||   |||  | ||  |  |    |  |||  |  |   | |        
ATAATAGGGGTGATCTAAAAATTTGTGATTTTGGCTTGGCTCGTCAGTATGGGAGTCCTTTAAAGCCATATACGCATCTGGTGGTTACTCTTTGGTACAGgtgagt-----gctaattt---gcttctatatgctattt--gtttctcacgatctttctctgtatgtgtattacattt--ttaagtatagttaaaggttttctaatgaattt--------

upper sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G01230.1 (Glycine max), 5'ss of exon 3
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag
||||  | |||||||||||||| |||||||||||| || |||||||||||||||||||||| ||||| ||||| || ||||| || ||| | ||||||||||  |||||  |      |||||     ||    | |||  ||||  |  |     |  | | ||    ||    | |     |  |  |  |||  ||| |||    |||||       
ATAATAGGGGTGAGTTAAAAATTTGTGATTTTGGATTGGCTCGTCAATATGGGAGCCCATTGAAACCATATACACACCTGGTGGTTACTCTTTGGTACAGgtgagtcatttgg-----tcagacatgccatt--tttttctgtttattcatgtcactggttaatt---tgtatgatattcctcattatag-ttcaattttattg----ttgtgaa-----

upper sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G37270.1 (Glycine max), 5'ss of exon 1
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaacca-aggactcacctttcttgctccttgtggctacag
||||  | || ||||||||||| |||||||||||| || ||||||| |||||||||||||| ||||| ||||| || || || || ||| | ||||||||||  |||||  |      | |||   |    || | ||||   ||| |||  | || | |  ||| |    | ||| || |   ||  |  |  || |  | ||| |  |||||       
ATAATAGGGGCGAGTTAAAAATTTGTGATTTTGGATTGGCTCGTCAGTATGGGAGCCCATTGAAACCATATACCCACCTTGTGGTTACTCTTTGGTACAGgtgagtcatttgg-----ttaga---catgccatttttttctgtttattc--atgtcact-ggttaa----tttgtatgatattcctcattatacatcaattttgttg-ttgtgaa-----

upper sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag
| || || |||||||| || |||||||| |||||  || |||| |||||||| |||||  | || ||||||||||| |||||||| ||  | |||||||||||     |  |     | |  |||| |     || | |        |        | | || ||  || |  | ||||         |||||  | | | ||  |              
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaa--gtgcgtttttaccctattctt-----gtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt-------------

upper sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0010g02550.t01 (Vitis vinifera), 5'ss of exon 1
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtca---tcggacaacatcagattcctcagcagtgttttggttttctt-ctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag
||||  | |||||||| || || |||||||||||| || |||| ||||| |||||||| || ||||| ||||||||  |||| || ||| | ||||||||||  |      | | ||   |||   || |  ||   | |    ||   ||| ||    | ||| |  | | | |  || |||          ||       ||| |||               
ATAATAGGGGTGAGTTGAAGATTTGTGATTTTGGATTGGCTCGGCAATACGGGAGCCCTTTGAAACCATATACTCATTTGGTGGTTACTCTATGGTACAGgtgagctggacttgcacttgatctcttttcctaggcatatgggtgtacactttcttctctcatttaagtaaaattaatgcttga---------gatctgttcttcatgc---------------

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|67025976|gb|CO454725.1|CO454725
EST:     GGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAACTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAACTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT