Sequence
atgc intronic sequence ATGC exonic sequencegtaactacatgatcaacatttatttttaaaaatattttttggtatatattaggatattgtcgactttttaatccatgtggttctttgtagGTTGTTATTCTTCAAGATTTCAAATGGTACGACTTTATTCTGAAGCTACACAGGCTCTATGGAGGTACACATCTATCAGTGAATGGTGTTTCGTCAATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G089860_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os03g03400.2 (Oryza sativa), 3'ss of exon 10
gtaactacatgatcaacatttatttttaaaaatattttttggtatatattaggatattgtcgacttt-ttaatccatgtggttctttgtagGTTGTTATTCTTCAAGATTTCAAATGGTACGACTTTATTCTGAAGCTACACAGGCTCTATGGAGGTACACATCTATCAGTGAATGGTGTTTCGTCAATGA
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gtgcctaaaaagtca---tttttcttta----tagttttgagtaagcattaagaaaagttagcctttgttaatttatgtgtcatttcatagGTCGTTATTCTTCAAGATTTCAAATGGCATGATTTCCTGCTCAAGCTTCATAGATTGTATGGAGGAACTCATCTATCAGTGACTGGTGTGTCATCGATAA
upper sequence: GRMZM2G089860_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv15s0046g01770.t01 (Vitis vinifera), 3'ss of exon 10
-------gtaactacatg--atcaacatttatttttaaaaatattttttggt--atatattaggata-----------ttgtcgactt----tttaatccatgtggtt--ctttgtagGTTGTTATTCTTCAAGATTTCAAATGGTACGACTTTATTCTGAAGCTACACAGGCTCTATGGAGGTACACATCTATCAGTGAATGGTGTTTCGTCAATGA
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gtagaacatttttccttggcattttgacttattcttctaccctcttttcatttaacataatgaaataagaagctttgctggtcaatttgagttttgcttcttactactatctctgcagGTTGTGATTCTTCAGGACTTCAAATGGTATGACTTTATTTTAAACCTACACAAGCTATACAAGGGGACACATTTGTCAGTAAAAAATGTATCTTCAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttggtatatattaggatattgtcgactttttaatccatgtggttctttgtagGTTGTTATTCTTCAAGATTTCAAATGGTACGACTTTATTCTGAAGCTACACAGGCTCTATGGAGGTACACATCTATCAGTGAATGGTGTTTCGTCAATGA
ttttaat putative branch site (score: 3)
ttctttgt putative PPT
tatatattaggatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactacatgatcaacatttatttttaaaaatattttttggtatatattaggatattgtcgactttttaatccatgtggttctttgtagGTTGTTATTCTTCAAGATTTCAAATGGTACGACTTTATTCTGAAGCTACACAGGCTCTATGGAGGTACACATCTATCAGTGAATGGTGTTTCGTCAATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG