Sequence
atgc intronic sequence ATGC exonic sequencegtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g36930.1 (Oryza sativa), 3'ss of exon 11
gtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
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----------------gcaagaacctaaatattttcttgattatattatctcttattttattcagaaattataagtatgccaattctgtgttcagGTACTTGACTGTGCAGTTTGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAGAAGGCAAAGATTTTACGG
upper sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 11
-----gtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
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ttgtaattgttgagatgaagattggttgtttctttgttgtgttatttcttccttggtaattgctatgagtgatgtgattttcaaccttttcctgttcaagGTACTTGACTGTTCAGTTTGTCCGTTTCTTTTGGAAGAGGGAATCCAACCAGAAGGCTAAGATTTTGCGG
upper sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 11
-----gtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
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ttgtaattgttcagatgaagtttggttgtttctttgttgtgttatttcttccttggtaattgctatgagtgatatgattttcaaccttttccttttcaagGTACTTGACTGTTCAGTTTGTCCGTTTCTTTTGGAAGAGGGAATCCAACCAAAAGGCTAAGATTTTGCGG
upper sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 11
-gta-agtccattaaatctttgcatttcacttgtgtcctcgtttataca-gtgtcctcatttatacagaaaaaaaat----acataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
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tgtggagtctactggcacccttctttt--tctatctccttgcttttgtttgtatatttctgggtgaagaaagagaattcttacaaataattttttcttctagGTACTTGACCATTCAGTTTGTTCGTTTTTTCTGGAAAAGGGAGTCGAATCAGAAGGCAAAGATTTTGCGG
upper sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 12
lower sequence: EFJ09332 (Selaginella moellendorffii), 3'ss of exon 10
gtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
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------------------------------------------gtg-ggttttatgatttatcaattgctctaatgtgca---ctgttttgttcagatacTTGACTGTGCAGTTTGTTCGTTTCTTCTGGAAACGGGAAACGAAACAGAAAGCAAAGATCTTGAGG
upper sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 12
lower sequence: EFJ12930 (Selaginella moellendorffii), 3'ss of exon 10
gtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
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--------------------------------------gtacgtg-ggttttatgatttat-caattgctctaaatgtg-cactgttttgttcagATACTTGACTGTGCAGTTTGTTCGTTTCTTCTGGAAGCGGGAAACGAAACAGAAAGCAAAGATCTTGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
tactccttccttt CT-rich tract
tcatttatacagaaaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtccattaaatctttgcatttcacttgtgtcctcgtttatacagtgtcctcatttatacagaaaaaaaatacataatactccttcctttagGTACTTGACTGTGCAGTTCGTTCGTTTCTTTTGGAAAAGGGAATCAAACCAAAAGGCGAAGATTTTACGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA