Sequence
atgc intronic sequence ATGC exonic sequence...gtttcttgaaaccatgtgatttgatcatctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttctactttattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCGAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00250.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g19690.2 (Oryza sativa), 3'ss of exon 4
--gtttcttgaaaccatgtgatttgat-catctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttctactttattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCGAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
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ttcttactaacagacaggagaaataaagtgctcttgttgtctatct--ttaccattacacctgagagtggcat-caaacaccaatacaagttttccttggcagGTAAGAATGGATCCTCGGAACAACGAAACTGATCTTGATAGTTTAATGTATGGTGCGATAGGAAGACTAACAGAACAAGAGCTAAAAAAACAAGAAGCAG
upper sequence: Vv05s0077g00250.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G135968_T01 (Zea mays), 3'ss of exon 4
gtttcttgaaacca-tgtgatttgatcatctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttc-tactttatt--gcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCGAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
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----cctgactttactaaggacaaaactagtgctcttcatcttcgtcttcctttcttgttcttttgagatttgtaactaacatggtacatattttccttggcagGTTAGAATGGATCCTCGAAACAAAGAAGTTAATCTCGATAGTTTAATGTATGGTACAATTGGTGGACTAACAGAACAAGAACTAAAAAAACAAGAAGCAG
upper sequence: Vv05s0077g00250.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 4
-----gtttcttgaaaccatgtgatttgatcatctac-actgtc-taataaacttccttccttcctttttttaatatt-caaatttgggtggttctactttattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCGAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
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tcttcattcttcctgcttgttcagtgtcataattccctactattgtggtaattctattttgtttttatcttttttactgctaatttaaat--------tttattgtagGTGAGATTAGATCCTAGAAATAAGGAGATTGATCTTGATAGTTCAATGTATGAGAAAATTCCTGACCTAACTGAGGAAGATATGAAAAAACAAGAAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttccttccttcctttttttaatattcaaatttgggtggttctactttattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCGAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
ttttaat putative branch site (score: 3)
ttctacttt putative PPT
ttcctttttttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttcttgaaaccatgtgatttgatcatctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttctactttattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCGAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG