Sequence
atgc intronic sequence ATGC exonic sequencegtatgttctatttgaaaatttcagttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os12g42300.1 (Oryza sativa), 3'ss of exon 9
gtatgttctatttgaaaatttc--agttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
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gtacgtc--attaaaacattttgaagtgatagtcacgtt-tagtttatgattttcctgtctttctgat-gtg---ctcttgttaaacatatgtgtagTTAGGTGCATTTCTGGCTGGGGCCATTCTTGCAGAGACAAATTTCCGTACCCAAATTGAAGCTGACATAAGGCCATTCAGAGGTTTGCTGCTTGGGTTGT
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 10
-----gtatgttctatt--tgaaaatttcagttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
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gttccgtattttccaatgcttaggattttaatt----tgggattgtggagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 10
gtatgttctatttgaaaatttcagttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
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----gttagaattaacaccc----ctacaaaaatataatttccatctaatatccttacttta--atgtcctaactca----attttactctgaagCTTGGAGCTTTTCTTGCTGGAGCACTTCTAGCAGAAACAAATTTCCGAACACAAATTGAAGCTGATATTAGGCCATTTAGAGGTTTACTTCTCGGTTTGT
upper sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 10
gtatgtt---ctatttgaaaatttcagttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
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gtttgttatcttgtttaaaagataaag---tatccaagtttgacaattttcgggtttaggcc-----attactgactt--tgatcttatt--gtgcagCTTGGAGCATTTTTGGCTGGGGCACTATTAGCAGAAACAAATTTCCGAACACAGATTGAAGCAGATATAAGGCCATTTAGAGGCTTACTTCTTGGGTTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
tcctgac putative branch site (score: 2)
tcattct CT-rich tract
atttatgattgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttctatttgaaaatttcagttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA