Sequence
atgc intronic sequence ATGC exonic sequencegtacgatttattgttagttgaaaatgaaaagtacccttactgtagtcgataacgatgtttcgttcccagggtacagaaataagccatcttagaaggccaggggctaagctccttcagttcttttgccattcttgatattagtgtttgaattggttttggtctgcagGTGAACATCAGGAGTATCGATGAAGCAATAGTAATTGGAGCTGCCCTCTCACTATCTTCATCTGCTTTTGTTCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g42300.1 (Oryza sativa), 3'ss of exon 4
gtacgatttattgttagttgaaaatgaaaagtacccttactgtagtcgataacgatgtttcgttcccagggtacagaaataagccatcttagaaggccaggggctaagctccttcagttcttttgccattcttgatattagtgtttgaattggttttggt--ctgcagGTGAACATCAGGAGTATCGATGAAGCAATAGTAATTGGAGCTGCCCTCTCACTATCTTCATCTGCTTTTGTTCTCCAG
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----------------------------------------------------------------ataggattattattatgctttactctgttgtaacaaggattaaggatttcc--tttcaagaccaactcagctgct--cattatatttagttctgatatctgcagGTGAATATCAGGAGCGTTGATGAAGCAATAGTAATTGGGGCTGCCCTCTCACTATCCTCATCTGCTTTTGTCCTTCAG
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G06890.1 (Glycine max), 3'ss of exon 5
gtacgatttattgttagttgaaaatgaaaagtacccttactgtagtcgataacgatgtttcgttcccagggtacagaaataagccatcttagaaggccaggggctaagctccttcagttcttttgccattcttgatattagtgtttgaattggttttggtctgcagGTGAACATCAGGAGTATCGATGAAGCAATAGTAATTGGAGCTGCCCTCTCACTATCTTCATCTGCTTTTGTTCTCCAG
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---------------------------------------------------ataattaatcatagctaga-tatgaaaaggtataatatcaataaaacttg----aagaggcttcactgcttt----aatctttaatttatt--ttgaaatcat----attcatagGTGAACATCAGAAGTGTCGATGAAGCTGTAGTGATTGGTGCTGCTCTCTCTCTGTCATCTTCTGCATTTGTTTTACAG
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 6
gtacgatttattgttagttgaaaatgaaaagtacccttactgtagtcgataacgatgtttcgttcccagggtacagaaataagccatcttagaaggccaggggctaagctccttcagttcttttgccattcttgatattagtgtttgaattggttttggtctgcagGTGAACATCAGGAGTATCGATGAAGCAATAGTAATTGGAGCTGCCCTCTCACTATCTTCATCTGCTTTTGTTCTCCAG
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--------------------------------------------------aattat-tgttattgctaga-tatgaaaaggtataatatcaataaaac----cttaagaggcttcactgcttt----aatcttta-atttatgttgaaatcat-----attcatagGTGAACATCAGAAGTGTTGATGAAGCTGTAGTGATTGGTGCTGCACTCTCTCTGTCTTCTTCTGCATTTGTTCTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcagttcttttgccattcttgatattagtgtttgaattggttttggtctgcagGTGAACATCAGGAGTATCGATGAAGCAATAGTAATTGGAGCTGCCCTCTCACTATCTTCATCTGCTTTTGTTCTCCAG
tcttgat putative branch site (score: 4)
ttgatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgatttattgttagttgaaaatgaaaagtacccttactgtagtcgataacgatgtttcgttcccagggtacagaaataagccatcttagaaggccaggggctaagctccttcagttcttttgccattcttgatattagtgtttgaattggttttggtctgcagGTGAACATCAGGAGTATCGATGAAGCAATAGTAATTGGAGCTGCCCTCTCACTATCTTCATCTGCTTTTGTTCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC