Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagtttgataaccttttcgatgggtcattaccccctcacattcagcagtggcgtgagtgcgtgacactcccactttttcatttcaaagGTAAATACATGGGGATATTCTACAATCAACTTTTTTGCACCCATGAGTCGTTATGCTAGTGCGGGTGGTGGACCTGTGGCTGCTTCCAAAGAGTTCAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G385578_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os09g29404.1 (Oryza sativa), 3'ss of exon 8
gtaaaagtttgataaccttttcgatgggtcattaccccctcacattcagcagtggcgtgagtgcgtgacactcccactttttcatttcaaagGTAAATACATGGGGATATTCTACAATCAACTTTTTTGCACCCATGAGTCGTTATGCTAGTGCGGGTGGTGGACCTGTGGCTGCTTCCAAAGAGTTCAAAC
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--gtaaacttatacactttatccatgcttaata--tccatcgtagtcaccatcagagtgact---------ttctctcttctcaattgaaagGTCAATACATGGGGCTATTCTACGATAAACTTTTTTGCACCCATGAGCCGTTATGCTAGTGCCGGTGGTGGACCAGTGGCTGCTTCCAAAGAGCTCAAGC
upper sequence: GRMZM2G385578_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 5
gtaaaagtttgataaccttttcgatggg-tcattaccccctcacattcagc--agtg-gcgtgagtgcgtgacactcccactt----tttcatttcaaagGTAAATACATGGGGATATTCTACAATCAACTTTTTTGCACCCATGAGTCGTTATGCTAGTGCGGGTGGTGGACCTGTGGCTGCTTCCAAAGAGTTCAAAC
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atttttctttgatgattgaattgaagagatcagagtatatataactttagtttactaagtggcattatatgacactgatggttgtatttttttttccaagATTAATACATGGGGTTATTCGACAATAAATTTCTTTGCTCCTATGAGTCGCTATGCTAGTGCTGGTGGAGGATCAGTTAATGCTTCCCGAGAGTTCAAGC
upper sequence: GRMZM2G385578_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0001g06520.t01 (Vitis vinifera), 3'ss of exon 8
-------gtaaaagtttgataaccttttcgatgggtcattaccccctcacattcagcagtggcgtg-agtgcgtgacactcccactttttcatttcaaagGTAAATACATGGGGATATTCTACAATCAACTTTTTTGCACCCATGAGTCGTTATGCTAGTGCGGGTGGTGGACCTGTGGCTGCTTCCAAAGAGTTCAAAC
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tttttatggcatatagcattatctcatgtcatagctttctaagttgccttatttggtattcatatacattatgatatgttttcatttctgaatcccaaagATTAACACGTGGGGATATTCAACAATAAATTTCTTTGCTCCTATGAGTCGCTATGCTAGTGCTGGTGGAGGACCTATTAAAGCTTCCAGGGAGTTCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcacattcagcagtggcgtgagtgcgtgacactcccactttttcatttcaaagGTAAATACATGGGGATATTCTACAATCAACTTTTTTGCACCCATGAGTCGTTATGCTAGTGCGGGTGGTGGACCTGTGGCTGCTTCCAAAGAGTTCAAAC
ccctcac putative branch site (score: 3)
ctcccactttttcatt putative PPT
tttttcatttcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagtttgataaccttttcgatgggtcattaccccctcacattcagcagtggcgtgagtgcgtgacactcccactttttcatttcaaagGTAAATACATGGGGATATTCTACAATCAACTTTTTTGCACCCATGAGTCGTTATGCTAGTGCGGGTGGTGGACCTGTGGCTGCTTCCAAAGAGTTCAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT