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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCCCTCTTTGGAAGGGATGAAGCATGTGAAGGCAGAGAACGGAGTCATTCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatttgcttcactgtcagctgtatgaggttttgaatcttaagtaggagtggctgcattacttaacctctgatttggtaccatgcttcagtagtg...

Basic information

species Zea mays
transcript GRMZM2G060870_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060870_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g40890.2 (Oryza sativa), 5'ss of exon 2
ACCCCCTCTTTGGAAGGGATGAAGCATGTGAAGGCAGAGAACGGAGTCATTCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatttgcttcactgtcagctgtatgaggttttgaatcttaagtaggagtggctgcattacttaacctctgatttggtaccatgcttcagtagtg-----
|| ||||| ||||| || ||||||||||| ||| |||||| | | ||||| |||||||||||||| |||||||||||||||||||||||||||||  ||||||||    ||   |  |  |   | |         |||  || |   |     ||  |   |||||  |  | |  ||  ||||   | |  || |||      
ACTCCCTCGTTGGAGGGTATGAAGCATGTTAAGTCAGAGAGCAGTGTCATACTCACCAAGCCCTTTCTTGATGTCTGCAAGCAAATCTTGCCTGTTTTGGgtaactgtctttgatttccatattcagatcagtagcttggttccttttttaatttgtat---ttact--atgtttagttcagtactgcggtggagcagtaaatgg
















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|211301820|gb|FK983372.1|FK983372
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCATATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211377987|gb|FK983378.1|FK983378
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211301817|gb|FK983369.1|FK983369
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCATATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211301814|gb|FK983366.1|FK983366
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211301815|gb|FK983367.1|FK983367
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCATATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211301822|gb|FK983374.1|FK983374
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211377989|gb|FK983380.1|FK983380
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211301812|gb|FK983364.1|FK983364
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211301818|gb|FK983370.1|FK983370
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211377986|gb|FK983377.1|FK983377
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCATATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
EST: gi|211453296|gb|FL230458.1|FL230458
EST:     TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGG                         ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA
genomic: TCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatt ... tatgcaccagATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCCCCTCTTTGGAAGGGATGAAGCATGTGAAGGCAGAGAACGGAGTCATTCTCACCAAGCCCTTCCTTGATGTCTGCAAGCAAATCTTGCCTGTCCTGGgtaacacatttgcttcactgtcagctgtatgaggttttgaatcttaagtaggagtggctgcattacttaacctctgatttggtaccatgcttcagtagtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA