Sequence
atgc intronic sequence ATGC exonic sequence...tttgtgatgtttttagtcactgtgagaattgcttgagatgtaatatattctgttatccagctgttttaatctaaaagtttctttcattctgtatgtacagGTTGAGGCTCTTCAGAAAATGGATGATTCTTATTTTGGAGAGGGTTTAACTCTTCTTGGTGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G011893_T01 (Zea mays), 3'ss of exon 3
----------------------------------------tttgtgatgtttttagtcactgtgagaattgcttgagatgtaatatattc-------tgttatccagctgttttaat--------ctaaaagtttctttc---attctgtatgtac-agGTTGAGGCTCTTCAGAAAATGGATGATTCTTATTTTGGAGAGGGTTTAACTCTTCTTGGTGAAAG
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gttgagcttcagaccggaaaagtatgcttaacttccatgctcattcatgtttatcgtcac-atgtctcgtgcttgcgacgctctttgttcactcactcatcacctgattattttactaagcttcccttaaagcttgatttgcaattcgccatttcttagGTTTTGGTTAACCACCAAATGGACGGAGATGTGTTTGGAGAAGGTTTAACTCTTCTTGGTGACAG
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G011893_T02 (Zea mays), 3'ss of exon 3
-------------------tttgtgatgtttttagtcactgtgagaattgcttgagatgtaatatattc-------tgttatccagctgttttaat--------ctaaaagtttctttc---attctgtatgtac-agGTTGAGGCTCTTCAGAAAATGGATGATTCTTATTTTGGAGAGGGTTTAACTCTTCTTGGTGAAAG
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gtatgcttaacttccatgctcattcatgtttatcgtcac-atgtctcgtgcttgcgacgctctttgttcactcactcatcacctgattattttactaagcttcccttaaagcttgatttgcaattcgccatttcttagGTTTTGGTTAACCACCAAATGGACGGAGATGTGTTTGGAGAAGGTTTAACTCTTCTTGGTGACAG
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 3
tttgtgatgtttttagtcactgtgagaattgcttgagatgtaatatattctgttatccagctgtt-ttaatctaaaagtttctttcattc-tgt-atgtacagGTTGAGGCTCTTCAGAAAATGGATGATTCTTATTTTGGAGAGGGTTTAACTCTTCTTGGTGAAAG
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--tttattgtccata-tcaatctgacatgcttattatgtttgattgattcttggacagtgttgaagttaatgtaaattttgtaattatttgtgccacatgcagGTTGACATTATTCACAAGATGGATGATTCTTATTTTGGGGAAGGTTTAACTCTCCTCAATAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctgttatccagctgttttaatctaaaagtttctttcattctgtatgtacagGTTGAGGCTCTTCAGAAAATGGATGATTCTTATTTTGGAGAGGGTTTAACTCTTCTTGGTGAAAG
atctaaa putative branch site (score: 3)
tttctttcattctgt putative PPT
ttttaatctaaaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtgatgtttttagtcactgtgagaattgcttgagatgtaatatattctgttatccagctgttttaatctaaaagtttctttcattctgtatgtacagGTTGAGGCTCTTCAGAAAATGGATGATTCTTATTTTGGAGAGGGTTTAACTCTTCTTGGTGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - -gtcactg
- - - - - - - - - - - - - - -tgcttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaaaag