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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAACTCTAATCGGGTTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaattatcataatgctttctcgcttgctttttttatttccatcaagcttgttttcactgaaatgctgtgttttttcttttaaaaaattcag

Basic information

species Zea mays
transcript GRMZM2G145107_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G145107_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g58080.1 (Oryza sativa), 5'ss of exon 4
GTAACTCTAATCGGGTTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaat-tatcataatgctttctcgcttgctttttttatttccatcaagcttgttttcactgaaatgctgtgttttttcttttaaaaaattcag
|||||| ||||||| |||||||||||||| |||||||| ||||| || |||||||||||||||||||||| | | ||| | ||   ||  ||| |  |||| ||  |||||||  ||    |||| |||||  | ||  | | | || |         
GTAACTTTAATCGGATTTTCTGCAGACCTTGGTTACATTTTAGGAGATACCACTGAGCACTGCAGgtaatctttgatacttctacttcctttgatagttttcttcacatcaagtgtgccgccactaaaatgacgagtactgtttgttcag--------
















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|78120050|gb|DV538434.1|DV538434
EST:     TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAG                         AACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
genomic: TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaattatca ... aaaaattcagAACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
EST: gi|93282781|gb|EB675045.1|EB675045
EST:     TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAG                         AACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
genomic: TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaattatca ... aaaaattcagAACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
EST: gi|19855127|gb|BQ060179.1|BQ060179
EST:     TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAACGCTGCAG                         AACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
genomic: TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaattatca ... aaaaattcagAACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
EST: gi|78078077|gb|DV506492.1|DV506492
EST:     TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAG                         AACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT
genomic: TTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaattatca ... aaaaattcagAACATATAAAGGTTCAAGGTTTCGAGCTGCTATTGTTTTCATTCTAGGATT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAACTCTAATCGGGTTTTCTGCAGACCTCGGTTACATCTTAGGGGACACCACTGAGCACTGCAGgtaattatcataatgctttctcgcttgctttttttatttccatcaagcttgttttcactgaaatgctgtgttttttcttttaaaaaattcag

- - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG