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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACAAGTTAGTGGAGCAAGCTGTTGGAATGCCATCAGTTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggttactgatttttttttctggcaccgacatcctcaagtactctctggtttataatgttgattttttattccttagtgcccaaaattggaatctttggcttatgattgacctttctttgtgtttcatgccttgcag

Basic information

species Zea mays
transcript GRMZM2G070218_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070218_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g51410.2 (Oryza sativa), 5'ss of exon 5
TGACAAGTTAGTGGAGCAAGCTGTTGGAATGCCATCAGTTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggttactgatttttttttctggcaccgacatcctcaagtactctctggtttataatgttgattttttattccttagtgcccaaaattggaatctttggcttatgattgac-ctttctttgtgtttcatgccttgcag
||| || || || || |||||||| || ||||| ||||| || ||||| |||||||| |||||||||||||||||| ||||||||||||||||           ||||||||||   ||  | ||  | |  |   |||    |||  |     || |||| |  | |||   || ||    |||||  | || || |||  | || |   | | ||| |||| || |||
TGATAAATTGGTCGAACAAGCTGTGGGCATGCCTTCAGTCGCTCAAATTTTCAAGGTTCATAGTGAAGCCTTCTTTAGGGATAATGAGgtaat----------ctttttttctgaatccatcttctgctaacatgatcta--ctatcttagcatttgtttacttgt-agttatcagaaggaaaatctgagactgattattttctctgtggctctcttttatgcattacag
















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|60358208|gb|DN225181.1|DN225181
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|60338581|gb|DN205554.1|DN205554
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|211208198|gb|FL442564.1|FL442564
EST:     ATATTCAAGGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: ATATTCAA-GGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|211466253|gb|FL386709.1|FL386709
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|211063379|gb|FL406022.1|FL406022
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|211221229|gb|FL370915.1|FL370915
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|211387313|gb|FL389279.1|FL389279
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|149095243|gb|EE180868.2|EE180868
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|60337499|gb|DN204472.1|DN204472
EST:     AAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: AAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|60354260|gb|DN221233.1|DN221233
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|60337794|gb|DN204767.1|DN204767
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGCGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|93281433|gb|EB673697.1|EB673697
EST:     TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: TTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
EST: gi|86466258|gb|DY232630.1|DY232630
EST:     AAGGTCCATAGTGAAGCC-TCTTTTCGAGATAATGAG                         AGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC
genomic: AAGGTCCATAGTGAAGCCTTC-TTTCGGGATAATGAGgtaatggtta ... tgccttgcagAGTAGTGTCTTGAGAGATTTGTCCTCCATGCGACGATTAGTTGTTGCCACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGACAAGTTAGTGGAGCAAGCTGTTGGAATGCCATCAGTTGCCCAAATATTCAAGGTCCATAGTGAAGCCTTCTTTCGGGATAATGAGgtaatggttactgatttttttttctggcaccgacatcctcaagtactctctggtttataatgttgattttttattccttagtgcccaaaattggaatctttggcttatgattgacctttctttgtgtttcatgccttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC