Sequence
atgc intronic sequence ATGC exonic sequencegtatcgtgccaacctattatgttaatactttgtatttttacgaaaaggcttattcatgcaaaacttactattattgttgtcacagGTCCGACTATTCCTAGATCGTCAAGATTATGTTCGAGCACAAATTTTATCAAGGAAAATCAGTACTAGAGTATTTGACGCAGATCCATCAAAGGAAAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G468717_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g63430.2 (Oryza sativa), 3'ss of exon 5
gtatcgtgccaacctattatgttaatactttgtatttttacgaaaaggcttattcatgcaaaacttactattattgttgtcacagGTCCGACTATTCCTAGATCGTCAAGATTATGTTCGAGCACAAATTTTATCAAGGAAAATCAGTACTAGAGTATTTGACGCAGATCCATCAAAGGAAAAAA
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---gtatgaagaaatacagtaataaagcttgaaattgttac-aaaagcctgggttctg-gaatcttactgtaatcatgatcacagGTCCGGCTGTGCTTGGATCGTCAAGATTATGTACGCGCACAGATTTTATCCAGGAAAATCAGTCCTAGGGTATTTGATGCAGACCCGTCAAAGGAAAAAA
upper sequence: GRMZM2G468717_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT5G09900.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatcgtgccaacctattatgttaatactttgtatttttacgaaaaggcttattcatgcaaaacttacta--ttattgttgtcaca-------gGTCCGACTATTCCTAGATCGTCAAGATTATGTTCGAGCACAAATTTTATCAAGGAAAATCAGTACTAGAGTATTTGACGCAGATCCATCAAAGGAAAAAA
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gtaaggacttgtgtagttacgttg-caattaataatttgctggtgttttctttcattgtgataactatcaaactattgtggtcaaactttaaagGTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCTAGGAAGATCAATCCTAGAGTTTTTGACGCAGATACAAAAAAAGATAAGA
upper sequence: GRMZM2G468717_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------------------------------------------gtatcgtgccaacctattatgttaatactttgtatttttacgaaaaggcttattcatgcaaaacttactattattgttgtcacagGTCCGACTATTCCTAGATCGTCAAGATTATGTTCGAGCACAAATTTTATCAAGGAAAATCAGTACTAGAGTATTTGACGCAGATCCATCAAAGGAAAAAA
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gtacgtgttatcttctttcattgttcttttaattacttctaccatttattcttttattgttcttttaattacttgtaccatttattcgtaacttattttatttttgggttcaaagttgataatgctactt-tttatgtaataat-gttgaaattact-tttcagGTCCGGCTGTGTTTAGACCGCCAAGATTATGTTCGTGCACAAATTCTCTCAAGGAAGATCAGCCCGAGGGTTTTCGATGCTGATTCTTCAAAAGAAAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatttttacgaaaaggcttattcatgcaaaacttactattattgttgtcacagGTCCGACTATTCCTAGATCGTCAAGATTATGTTCGAGCACAAATTTTATCAAGGAAAATCAGTACTAGAGTATTTGACGCAGATCCATCAAAGGAAAAAA
aacttac putative branch site (score: 2)
aaaacttactattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcgtgccaacctattatgttaatactttgtatttttacgaaaaggcttattcatgcaaaacttactattattgttgtcacagGTCCGACTATTCCTAGATCGTCAAGATTATGTTCGAGCACAAATTTTATCAAGGAAAATCAGTACTAGAGTATTTGACGCAGATCCATCAAAGGAAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA