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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGATCAAGCCGTTGAGGTGGATTCAGCAGCTAAGCTCCCTGTCATGCTTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacattattttctgtatgtaatatgtacaagttatatgctactgttactttcacatgggatgatgggataccttattttgtgctttacagcttcac...

Basic information

species Zea mays
transcript GRMZM2G372398_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G372398_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g15350.1 (Oryza sativa), 5'ss of exon 5
TTATGATCAAGCCGTTGAGGTGGATTCAGCAGCTAAGCTCCCTGTCATGCTTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacattattttctgtatgtaatatgtacaagttatatgctactgttactttcacatgggatgatgggatacct-tattttgtgctttaca-gcttcac-
||||||||| || |||||||||||| |||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||| |  |  || |||||||||||||||||||||||||||||   |       |||   |  ||   |      || ||    | ||   | || | | |  | | ||    |   ||||  
TTATGATCAGGCTGTTGAGGTGGATCCAGCAGCTAAGCTCCCTGTCATGCTTGCACTAACAAGTTTATGGATAAGGAAGAACTATGATGGAAGCTTTTTGgtaagacattattttctgtatgtgtcacacc---gttgcttagtatcatacaagacatatcaacttataaaacacttgtgtagtttactgggtatatttcaag
















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|211224649|gb|FL333451.1|FL333451
EST:     TTGCACTAACAAGTTTGTGGCTNAGGAAGAACTACGCAGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTG
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTG
EST: gi|76291540|gb|DV031108.1|DV031108
EST:     TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
EST: gi|211345453|gb|FL473816.1|FL473816
EST:     TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
EST: gi|32929212|gb|CF034024.1|CF034024
EST:     TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
EST: gi|211541444|gb|FL362038.1|FL362038
EST:     TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCMGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAA
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAA
EST: gi|211368358|gb|FL031161.1|FL031161
EST:     TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
EST: gi|211265965|gb|FL477742.1|FL477742
EST:     TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTG                         GTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG
genomic: TTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacatt ... caaattccagGTTCGCTTTATCGATTCACTTCCAGAAATATATCCTGTTGTTAACAAATGG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATGATCAAGCCGTTGAGGTGGATTCAGCAGCTAAGCTCCCTGTCATGCTTGCACTAACAAGTTTGTGGCTAAGGAAGAACTACGCAGACAGTTTTTTGgtaagacattattttctgtatgtaatatgtacaagttatatgctactgttactttcacatgggatgatgggataccttattttgtgctttacagcttcac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC