Sequence
atgc intronic sequence ATGC exonic sequencegtaaaccatctacatttgttatcctacattttctgtgaaatattttggcacatttcctcaataactcatggtgtggtttgtttacttctgcataatcgtagtcgggagacactataaccaattttctctccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTACCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G358281_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 3'ss of exon 4
gtaaaccatcta--catttgttatcctacattttctgtgaaatat--tttggcacatttcctcaataactcatggtgtggt-ttgtttacttctgcataatcgtagtcgggagacactataaccaattttctctccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTACCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
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gtatgctgtttatgcatttga-atactatattttctgtgatctatcattgtgtgccgtttcctgatagcttcaggtgcagtgttatttgtttctg-acaacca---------------gtaatcaatcattcctttttgct---cagGGCCAAATGTTAACAGTTGTGGAATATTTTCTACTTCTGTACCGAGCATTATTGCCTGCTCCTGTATGGTACCGATTTTTCCTGAACAAGGAGTATGGAA
upper sequence: GRMZM2G358281_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G45010.1 (Glycine max), 3'ss of exon 4
gtaaaccatctacatttgttatcctacattttctgtgaaatattttggcacatttcctcaataactcatggtgtggtttgtttacttctgcataatcgtagtcgggagacactataaccaattttctctccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTACCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
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---------------------------------tctgctatcttttgtaacatttcctgg---agttatgg-gttcaggatctatatcatctttctcat-gtcattacattctgatggtactatcatttttttg----tcagGGTCAAATGCTGACTTTAGTTGAATACCTCCTCCTGCTTTACCGTGCCTTGTTGCCAACACCAGTTTGGTATCGTTTCTTCCTGAACAAAGAATATGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcataatcgtagtcgggagacactataaccaattttctctccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTACCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
ctataac putative branch site (score: 3)
ttttctctccttgctg putative PPT
aattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaccatctacatttgttatcctacattttctgtgaaatattttggcacatttcctcaataactcatggtgtggtttgtttacttctgcataatcgtagtcgggagacactataaccaattttctctccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTACCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG