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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgtttattcgttaagtatcaaataaattttctgaaaagtttattcagaaaatgcacgaatagtttaattgttccctcccttgaaaactattag...

Basic information

species Zea mays
transcript GRMZM5G836674_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G836674_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os01g53720.2 (Oryza sativa), 5'ss of exon 10
GCTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgtttattcgttaagtatcaaataaattttctgaaaagtttattcagaaaatgcacgaatagtttaattgttccctcccttgaaaactattag-----------
||| |||||||  | ||||||| ||||||||||| ||||||||||||||||||   | || |   |    || | | | |  | |||  |||  |||| |          ||| ||||  ||| | |||||| |  ||| || ||||  ||           
GCTGAAATAGTCTCGTCTATTGATCAGCTTTTAGGAACAGCTGAGATACAGgttc-tgtgctctcttaacaatttttagaacactttcatgattagttca----------gcatgaatcattttaatgttcctttgcttaaatactaagagcatccgtctag
















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|211210967|gb|FL454934.1|FL454934
EST:     CTAAGATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
genomic: CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
EST: gi|211172338|gb|FL126915.1|FL126915
EST:     CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
genomic: CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
EST: gi|37380377|gb|CF626997.1|CF626997
EST:     CATCTATNGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCATTAAGACCG
genomic: CATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
EST: gi|211210968|gb|FL454935.1|FL454935
EST:     CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
genomic: CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
EST: gi|211190907|gb|FL449388.1|FL449388
EST:     TTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
genomic: CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
EST: gi|32912236|gb|CF017048.1|CF017048
EST:     CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
genomic: CTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
EST: gi|149033217|gb|EE155000.2|EE155000
EST:     AATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAG                         AAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG
genomic: AATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgt ... tcatattcagAAAGTATTGTTCCTTGAAACTCCTGAGAGGATTTCGTCTGCACTGAGACCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTAAAATAGTGCCATCTATTGGTCAGCTTTTAGAAACAGCTGAGATACAGgtaagtatgtttattcgttaagtatcaaataaattttctgaaaagtttattcagaaaatgcacgaatagtttaattgttccctcccttgaaaactattag

- - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctccc