Sequence
atgc intronic sequence ATGC exonic sequencegtgaggatatattatctcgttttctcatatttgttgaaagaaaacaattaacactggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaattagtgagattgtgtacaaatttacctcgttctaattcttttgtgaagGTATGGTTTATTGGGTAAGAAAATAAAAAGATACATTTGGTCACATAGGAGGACCGACGTTAGGTGGGCTTGTGGGATTGAAGAAGCCGATCAACCATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g26290.5 (Oryza sativa), 3'ss of exon 7
gtgaggatatatt-atctcgttttctcatatttgttgaaagaaaacaa---------ttaacactggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaa-ttagtgagattgtgtacaaatttacct--cgttctaattcttttgtgaagGTATGGTTTATTGGGTAAGAAAATAAAAAGATACATTTGGTCACATAGGAGGACCGACGTTAGGTGGGCTTGTGGGATTGAAGAAGCCGATCAACCATGG-
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gtgaggatgcatttatctcattttctcatatttgccgaaagaaaaaaaatataaccattgatgcgggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaaattagtgagaatgtgtacaa-tttacctgatattctgattcttttgtgaagGTATGGATTATTGGGTAAGAAAATAAAA-GACACATTTGGTCACATAGGAGGACCGATATTAGGTGGGCTTGTGGGACTGAAGAAGCCGAACAACCATGGC
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g26290.6 (Oryza sativa), 3'ss of exon 7
gtgaggatatatt-atctcgttttctcatatttgttgaaagaaaacaa---------ttaacactggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaa-ttagtgagattgtgtacaaatttacct--cgttctaattcttttgtgaagGTATGGTTTATTGGGTAAGAAAATAAAAAGATACATTTGGTCACATAGGAGGACCGACGTTAGGTGGGCTTGTGGGATTGAAGAAGCCGATCAACCATGG
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gtgaggatgcatttatctcattttctcatatttgccgaaagaaaaaaaatataaccattgatgcgggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaaattagtgagaatgtgtacaa-tttacctgatattctgattcttttgtgaagGTATGGATTATTGG--------------------------------------------------------------------------------------
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g26290.6 (Oryza sativa), 3'ss of exon 8
gtgaggatatattatctcgttttctcatatttgttgaaagaaaacaattaacactggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaattagtgagattgtgtacaaatttacctcgttctaattcttttgtgaagGTATGGTTTATTGGGTAAGAAAATAAAAAGATACATTTGGTCACATAGGAGGACCGACGTTAGGTGGGCTTGTGGGATTGAAGAAGCCGATCAACCATGG
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gtaagaaaataaaaga---------cacatttggtcacataggaggaccgatattaggtgggcttgtgggactgaagaagccgaacaaccatggcgtaccttattctttgactgaagagtttaccagtg--tttacagAATGCACTCCCTAATACCAAGC----ACTCTCAAGCTCAGGGATCCGACAGGGCAACCCGAT-GCAAATAATTCCCCACCATGCCTGGAAGA----------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattaattagtgagattgtgtacaaatttacctcgttctaattcttttgtgaagGTATGGTTTATTGGGTAAGAAAATAAAAAGATACATTTGGTCACATAGGAGGACCGACGTTAGGTGGGCTTGTGGGATTGAAGAAGCCGATCAACCATGG
ttctaat putative branch site (score: 2)
ttcttttgt CT-rich tract
tacaaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggatatattatctcgttttctcatatttgttgaaagaaaacaattaacactggtattacttttccaagtggaaattttatttacatctgcaaattcaaattaattaattagtgagattgtgtacaaatttacctcgttctaattcttttgtgaagGTATGGTTTATTGGGTAAGAAAATAAAAAGATACATTTGGTCACATAGGAGGACCGACGTTAGGTGGGCTTGTGGGATTGAAGAAGCCGATCAACCATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC