Sequence
atgc intronic sequence ATGC exonic sequence...agcatataacttgaactctacgctagactagatatgtattaagaatcgaaattttgaactgttcccttattgtgcgttgatgcgatatttgttcctacagAGGATGGAAGAAATGGCACATTTATGATCGGTAATGAGAGCTTTCCTTCATCTCTCTTGGATCTACCTGCTGTGGTGGAGTCATACAAAACATATGATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G454830_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g28010.1 (Oryza sativa), 3'ss of exon 1
agcatataacttgaactctacgctagactagatatgt-attaagaatcgaaattttgaactgttcccttat-----tgtgcgttgatgcgatatttgttcctacagAGGATGGAAGAAATGGCACATTTATGATCGGTAATGAGAGCTTTCCTTCATCTCTCTTGGATCTACCTGCTGTGGTGGAGTCATACAAAACATATGATGA
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----cacaacttaaattataa--taccctggtattgttatcaggatgtgaattttttatctaatatttgttgaacctgtggattgatggtatttttcatgctatagAGGATGGAAGAAATGGCACATTTATGATTGGGAATGAAAGCTTTCCTGCATCACTCTTGGATCTCCCAACTGTTGTGGAGTCATACAAGACATATGATGA
upper sequence: GRMZM2G454830_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g28010.2 (Oryza sativa), 3'ss of exon 1
agcatataacttgaactctacgctagactag-atatgtattaagaatcgaaattttgaactgttcccttat-----tgtgcgttgatgcgatatttgttcctacagAGGATGGAAGAAATGGCACATTTATGATCGGTAATGAGAGCTTTCCTTCATCTCTCTTGGATCTACCTGCTGTGGTGGAGTCATACAAAACATATGATGA--
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------caacttaaattataa--taccctggtattgttatcaggatgtgaattttttatctaatatttgttgaacctgtggattgatggtatttttcatgctatagagGATGGAAGAAATGGCACATTTATGATTGGGAATGAAAGCTTTCCTGCATCACTCTTGGATCTCCCAACTGTTGTGGAGTCATACAAGACATATGATGATT
upper sequence: GRMZM2G454830_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g46020.2 (Oryza sativa), 3'ss of exon 1
agcatataacttgaactctacgctagactagatatgtattaagaatcgaaattttgaactgttccctta----ttgtgcgttgatgcgatatttgt-tcctacagAGGATGGAAGAAATGGCACATTTATGATCGGTAATGAGAGCTTTCCTTCATCTCTCTTGGATCTACCTGCTGTGGTGGAGTCATACAAAACATATGATGA
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tggatacaacttgtattgtaa--tactctagtactgttatca---ctgaaattttcagttaatcttttttgacttgtggattggtgttcttttttcgtgctacagAGGATGGAAGAAGTGGCACATTTATGATTGGAAATGAAAGCTTTCCAGCATCTCTCTTAGATCTCCCAACTGTTATGGAGTCATACAAGACATACAATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgaaattttgaactgttcccttattgtgcgttgatgcgatatttgttcctacagAGGATGGAAGAAATGGCACATTTATGATCGGTAATGAGAGCTTTCCTTCATCTCTCTTGGATCTACCTGCTGTGGTGGAGTCATACAAAACATATGATGA
cgttgat putative branch site (score: 5)
tttgttcct putative PPT
atatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcatataacttgaactctacgctagactagatatgtattaagaatcgaaattttgaactgttcccttattgtgcgttgatgcgatatttgttcctacagAGGATGGAAGAAATGGCACATTTATGATCGGTAATGAGAGCTTTCCTTCATCTCTCTTGGATCTACCTGCTGTGGTGGAGTCATACAAAACATATGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - -atatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgatgc