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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtttttgaccatatattttttattgtagttgttctgtttctttagattcatagaccccttggaggcaaccacatgattgtttcaaagagcgtaaggaagttgtattttggcattgatgaaatatcctgtctcag

Basic information

species Zea mays
transcript GRMZM2G020721_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 5'ss of exon 9
TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtttttgaccatatatttttta-ttgtagttgttctgtttctttagattcatagaccccttggaggcaaccacatgattgtttcaaagagcgtaaggaagttgtattttggcattgatgaaatatcctgtctcag
|||||| ||||| || || |||||||| ||||| || ||||||||||||||||||||||| ||||| ||||||||||| ||||| |||||||||||||||||||||||    |||  | |  | || || ||  |  | |     | |||||         | || |    | | |        ||||| | | || |   ||||||                                
TAAACCTGATCTCCCTCGATTGCATGAGTGGCATTTCCGATCTGGACTGGATCGCTACATATGGATTGTGGGGATGATTTATGCTTATTACCATCCAACTgtatgtttcctgccaactgtgctatacttttacatagtgttcagttatagatgttctatttctttagttttatcaa-------atttcataaatcgcataaaagttg--------------------------------

upper sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 9
TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtttttgaccatatattttttat---tgtagttgttctgtttc-------tttagattcatagaccccttggaggca--accacatgattgtttcaaagagcgtaaggaagttgtatt--ttggcattgatgaaatatcctgtc-tcag-----------------
 ||| || ||||| | || |||||||||||||| ||||| || || || || |||||||| |||||  | || ||||| ||||| ||||| |||||||||||| |||| | |   ||| ||||| |    |||     ||  | | |        || |||  |  ||    |  || |||  |  | ||   || ||       | |       |||  ||  ||  | |   |  | || | | |  || |                 
CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag

upper sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA07G36550.1 (Glycine max), 5'ss of exon 9
TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtttttgaccatatattttttattgtagttgttctgtttc----tttagattcatagaccccttggaggcaaccacatgattgtttcaaagagcgtaaggaagttgtattttggcattgatgaaatatcctgtctcag--------------------------------------
 ||| || ||||| | || |||||||| ||||| ||||| || || || ||||||||||| |||||  | || ||||| ||||| ||||| |||||||||||| |||| | |   ||| ||||| |    |||    |   |      ||||||| |||   | |  ||   |     | ||  |       || | | |     | || | | |   | ||  |    |    | || | |                                      
CAAATCACATCTTTCTCGCTTGCATGAGTGGCATTTTCGTTCAGGGCTTGATCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaataagtgaaacaaatctaacatttagatccat--tctctctgattgagtgaagattctgaagcagaaaaacatctctgatttctgtctcctcctttttttgcttcaatttccctgatttgagtaccttattgtctgtcacatggcattacaag

upper sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
lower sequence: PP1S5_239V6.1 (Physcomitrella patens), 5'ss of exon 9
TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtt--tttgaccatatattttttattgtagttgttctgtttctttagattcatagaccccttggaggcaaccacatgattgtttcaaagagcgtaaggaagttgtattttggcattgatgaaatatcctgtctcag-----------------------------------------------------------
|    |    |  |||  | | ||||||||||| ||| |||| ||||||||||| || ||||||||||| || ||| | ||||| |||| ||||||||| |||||||  ||||  ||  || || |    ||||  |  |  |||    |  ||| |  |    | |   |    |   | ||| |  ||   ||   |   | |  |  || ||||   |  |   ||   | ||  |                                                            
TGCGACCCCGCAGCCCTTGCTTCATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcacctaattctatcggtagaagggcgatttacgcatgttcctgaataaat-gtgagtggtcttttcattttgacacgtagtacagatacgcag--ttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag

upper sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
lower sequence: PP1S357_34V6.1 (Physcomitrella patens), 5'ss of exon 9
TAAACCAGATC-TTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtttttgaccatatattttttattgtagttgttctgtttctttagattcatagacccc-ttggaggcaaccacatgattgtttcaaagagcgtaaggaagttgtattttggcattgatgaaatatcctgtctcag
 ||| ||   |  ||||  | ||||||||||||| ||  |||| ||||||||||| ||||| ||||| ||||| ||| | ||||| ||||  ||||| || ||||       | ||| |    |||        ||||  |       |||   ||||    | || |||    |  |||| |||| | |   ||  |  || | |  | |  || |                       
-AAAGCACCCCACTCCCTTGCTGCATGAATGGCACTTCAGATCAGGACTGGATCGATACATCTGGATTGTGGGCATGCTCTATGCGTATTTTCATCCTACGgtatt------aacatttggacttt--------tgtttcgaaagaaaagacgtatagttatcgtttgagttcgcagcatg-ttgtgt-actaagtttctggcattcttgtcatgac-----------------------

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|5895688|gb|AW036934.1|AW036934
EST:     ATCGCTACATTTGGATTGTGGGGATGATATATGCATATTACCATCCAACT                         GTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
genomic: ATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgttttt ... cctgtctcagGTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
EST: gi|5901242|gb|AW042342.1|AW042342
EST:     ATCGCTACATTTGGATTGTGGGGATGATATATGCATATTACCATCCAACT                         GTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
genomic: ATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgttttt ... cctgtctcagGTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
EST: gi|5847179|gb|AW000258.1|AW000258
EST:     ATGGCTACATTTGGATTGTGGGGATGATATATGCATATTACCATCCAACT                         GTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
genomic: ATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgttttt ... cctgtctcagGTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
EST: gi|5895689|gb|AW036935.1|AW036935
EST:     ATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACT                         GTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
genomic: ATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgttttt ... cctgtctcagGTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
EST: gi|5343255|gb|AI795560.1|AI795560
EST:     ATCGCTACATTTGGATTGTGGGGATGATATATGCATATTACCATCCAACT                         GTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
genomic: ATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgttttt ... cctgtctcagGTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
EST: gi|32936459|gb|CF041278.1|CF041278
EST:     GCATATTACCATCCAACT                         GTCGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC
genomic: GCATATTACCATCCAACTgtatgttttt ... cctgtctcagGTTGAGAAGTGGTTGGAGAAGCTGGAAGAAACTGAAATGAGAACCAAACTC