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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACGATAGATTATATGAGTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccacacacttgtatcttgttgatgcttactttatggataatggtgtacaaaaagttttttttacttttgtcatttctttgatatcggaaaactg...

Basic information

species Zea mays
transcript GRMZM5G807767_T03
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G807767_T03 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os05g50980.1 (Oryza sativa), 5'ss of exon 7
ATGACGATAGATTATATGAGTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccacacacttgtatcttgttgatgcttactttatggataatggtgtacaaaaagttttttttacttttgtcatttctttg-atatcggaaaactg-------
||||| || |||||||||||||| || ||||||  |||||||||||||||||| ||||||||||||||||||||| ||     |||  | |  ||  |||||  | |        ||     || |    |  |||  |  ||| ||   ||| | ||   |||| | ||       
ATGACAATTGATTATATGAGTGGAGTGAACAGCTCATTTATGGAAAGATATGGTTTCTCATCACCAACGgtatgatcatgtgtttgattttaattcttgcttgttct--------tgcaagccacatctgtcctttcccacttggcaggacttagcattgaggaatattgtgttggg
















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|211020790|gb|FL433478.1|FL433478
EST:     GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACG                         AATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
genomic: GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccac ... aattctgcagAATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
EST: gi|211151156|gb|FL467091.1|FL467091
EST:     GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACG                         AATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
genomic: GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccac ... aattctgcagAATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
EST: gi|108953379|gb|EC364711.1|EC364711
EST:     GTGGCGTCAACAGCAAATTTGTGGAAAGATATGGGTTCTCATCACCAACG                         AATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
genomic: GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccac ... aattctgcagAATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
EST: gi|13557817|gb|BG549173.1|BG549173
EST:     GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACG                         AATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCA
genomic: GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccac ... aattctgcagAATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCA
EST: gi|211112501|gb|FL459338.1|FL459338
EST:     GTGGCGTCAACAGCAAATTTGTGGAAAGATATGGGTTCTCATCACCAACG                         AATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
genomic: GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccac ... aattctgcagAATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
EST: gi|211112500|gb|FL459337.1|FL459337
EST:     GTGGCGTCAACAGCAAATTTGTGGAAAGATATGGGTTCTCATCACCAACG                         AATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT
genomic: GTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccac ... aattctgcagAATCCTTGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGAT

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGACGATAGATTATATGAGTGGCGTCAACAGCAAATTTATGGAAAGATATGGGTTCTCATCACCAACGgtatgaccacacacttgtatcttgttgatgcttactttatggataatggtgtacaaaaagttttttttacttttgtcatttctttgatatcggaaaactg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaaaaag