Sequence
atgc intronic sequence ATGC exonic sequencegtggttattgcacttgtcaatttattgaatcatgtggttgttggaaatctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G135133_T01 (Zea mays), 3'ss of exon 3
---gtggttattgcacttgtcaatttattgaatcatgtggt--tgttggaaatctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
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gtagctttcttctgccccaggaaatggttctcttatatcgcgctcttggcaattt---ggcttgctttatggaagtttt--tttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
upper sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G443668_T01 (Zea mays), 3'ss of exon 4
gtggttat----tgcacttgtcaat--ttattgaatcatgtggttgttggaaatctttagggataacctgagtga-cttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
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gtagctttcttctgccccaggaaacggttctcttatattgcgctc-ttggcaattt---ggcttgctttatggaagttttttttttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTGGGAACTGGCAACGCCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
upper sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G893355_T02 (Zea mays), 3'ss of exon 5
gtggttat----tgcacttgtcaat--ttattgaatcatgtgg--ttgttggaaatctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
|| | | | ||| | | ||| || | | || | | | |||| ||| | || | | | | ||| | || ||||||||| ||||| | || |||||||||||||| || ||||| || |||||||| ||| ||||||||||| |||||||||||||| || | | ||
gtagctttcttctgccccaggaaatggttctcttcttatatcgcgctcttggcaattt---ggcttgctttatggaaggttttttttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTGGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
upper sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G04300.1 (Glycine max), 3'ss of exon 2
--gtg-gttattgcacttgtcaatttattgaatcat-gtggttgttggaaa----tctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
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gtatatatttctgtacttgg-aatgcattgtattgttgtcaccagtacaaagtgattatataggatgacattc-tgactcttggttcatctttagTGGCTACTGAGGTTTTTAGTTGGGGCAGTGGTGCAAATTATCAGCTTGGAACTGGAAATGCGCATATTCAGAAGTTACCATGCAAAGTTGATTCACTTGG
upper sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 2
---gtggttattgcacttgtcaatttattgaatcatgtggttgttggaaa----tctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
|| || ||||| | | | || | ||| | ||| | | |||| || ||||| || | | |||||| ||||| ||| | ||||||||||| |||||| || ||||| ||||||||||| || | || || || ||| ||||||| ||||||||||||||
gtataaatttctgtacttggaatgctttggattgttgtcaccagtacaaagtgattatataggatgaca-atttgactcttggttcatctttagTGGCCACTGAGGTCTTTAGTTGGGGCAGTGGTACAAATTATCAGCTTGGAACTGGAAATGCGCATATTCAGAAGTTACCATGTAAAGTTGATTCACTCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtggttgttggaaatctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
ggataac putative branch site (score: 3)
tctgttt putative PPT
aaatcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggttattgcacttgtcaatttattgaatcatgtggttgttggaaatctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG