Sequence
atgc intronic sequence ATGC exonic sequence...ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g38340.1 (Oryza sativa), 3'ss of exon 3
ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacct-acacttt-cccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
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ctattttgggacggaggaag--tactacattatttgcccctctttttcctttcgtctatgttgagagatatatttatgaggaatttcatgctttgttttcagTGTGAAATGACAGGTGTTGTAGTCGATGTGGGTGATGGGGCTACCCACATTGTTCCTGTTGCTGATGGTTATGTTATAGGAAGCAGCATCAGATCAATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC205703.4_FGT002 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------------ttgtcttaaagtgtaccttgct-tcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacct-acacttt-cccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
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gttagtcatcggagcttagccctgcacttttgcataggcatgcctgacactaaaatggatggcaattgcattcagcaggccatgtttcagtgtacttgaaaatgtttcatcactgtttctcttctttgttgagcgatcatcacactcttatatttatgagaaacttcatgctttgttttcagTGTGAAATGACAGGTGTTGTAGTTGATGTGGGTGATGGGGCTACCCATATCGTTCCGGTTGCTGATGGTTATGTCATTGGGAGCAGTATCAGATCTATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G092459_T02 (Zea mays), 3'ss of exon 3
ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacct-acacttt-cccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC---------
|||||| | | | ||| | || || ||| || ||| | ||| || ||| | | |||| | ||||||| |||||||| |||||||| ||||| || ||||||||||| || | || || ||||| ||||||||||| ||||||||||| || | || ||||
---------------aaatgcttcatcgctgtttttctttcttccctgttgagcgatcatcacactcttacatttatgagaaacttcatgctttgttttcagtgtgaaatgacagGTGTTGTAGTTGATGTGGGTGATGGGGCTACCCACATCGTTCCAGTTGCTGATGGTTATGTCATTGGGAGCAGTATCAGATCTATTCCAATTACAG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G106513_T01 (Zea mays), 3'ss of exon 4
---------------------------------------------------------------------------------------ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttga-tgattgattgacccttgccttttagattaacct-acacttt-cccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
| || ||||||| | | | | ||| ||| | |||| ||| || ||| ||| || ||| | | ||| | ||||||| |||| ||| |||||||| ||||| || ||||||||||| ||| |||| || |||| ||||||||||| ||||||||||| || | || ||||
gttagtcatcggagcttagccttgcacttttgcataggctgataggcatggctgacactaaaatggatggcaattgcattcagcaggccatgtttcagtgtacttgaaaatgttttatcacggtttcccttctttgttgagcgatcatcacactcttatatttatgagaaactttatgttttgttttcagTGTGAAATGATAGGTGTTGTAGTTGATGTGGGTGATGGGGCTACCCATATTGTTCCGGTTGTTGATGGTTATGTCATTGGGAGCAGTATCAGATCTATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G092459_T03 (Zea mays), 3'ss of exon 3
-----------------------------------------------------------------------------------ttgtcttaaagtgtacct------tgcttcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacct-acacttt-cccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
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gttagtcagcatagcttagccttgttgtttctttagcataggcatgccttacgctaaaatgaatggcaatagcatcgagcaggccatgttttagtgtacttgaaaaatgcttcatcgctgtttttctttcttccctgttgagcgatcatcacactcttacatttatgagaaacttcatgctttgttttcagTGTGAAATGACAGGTGTTGTAGTTGATGTGGGTGATGGGGCTACCCACATCGTTCCAGTTGCTGATGGTTATGTCATTGGGAGCAGTATCAGATCTATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 2
-------ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
| | ||| | ||| ||||| | | || | | ||| || | || | | || |||||||| | | || | || ||||||||||||||||||| ||||||||||||||||| ||||| |||||||| ||||| ||||||||||| || |||||||||||||| ||||| || || ||||
accattagagctatgaagaa-attttgtttcttgttttcttattgtatctgtct------tactttaagaatattttccttttaggctgatctggaattcttcttagTGTGAGATGACAGGAGTTGTAGTGGATGTTGGAGATGGAGCTACTCACGTTGTGCCTGTTGCAGACGGCTATGTTATTGGGAGTAGCATCAAATCGATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 2
ttgtcttaaagtgtaccttgcttcttatgtaaataatt--tttcttgct----ctttgatgattgattgacccttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
|| ||||| | ||| | ||| || |||||| | || | | || | | || | ||| | | | || | | | ||||| |||||||| || ||||||||||||||||| ||||||||| |||||||||||||||||||||| || ||||||||||| || ||||| || || ||||
------ataacagtaccataggagctatcaagatattttgtttcttattatatctattttattttaagaatattttcatttatggctgatctgaaatccttcatagTGCGAGATGACTGGAGTTGTAGTGGATGTTGGAGATGGGGCTGCTCATGTTGTACCTGTTGCAGACGGCTATGTTATTGGCAGTAGCATCAAATCGATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 2
ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctc--tttga--tgattgattgacccttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
| ||| ||||| | |||| | | |||||||| | | || | || || | || ||||| || | | || | || ||||| ||||||||||| |||||||| |||||||| ||||||||| ||||||||||||| ||||| || || ||||||||||| || ||||| || |||||||
---tgataaca-gtaccataggagttatcaattttttttttcttattatatctggcttattttatgaatattttcctttaaggctgatctgaaattctttgtagTGCGAGATGACAGGAGTTGTAGTCGATGTTGGAGATGGGGCTGCTCATGTTGTACCCGTTGCGGACGGCTATGTTATTGGTAGTAGCATCAAATCAATTC
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 2
ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttgat--gattgattgacc----cttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
| || ||| || ||| |||| | || ||||| | |||| | | | || | || |||| ||| || || |||| || |||||||||||||||||||||||||||| |||||||| |||||||| ||||||||||||||||||||||| |||||||| || |||||| | || || || ||||
--gcttt---gtgggatttagcaaatat-taaacatgttctcttgttttttgttctgtctcgttatgctcgcctcgcctcttaatttgacttacaattcttcttagTGTGAGATGACAGGGGTTGTAGTAGATGTTGGAGATGGGGCAACTCATGTTGTACCTGTTGCAGAAGGTTATGTCATCGGGAGCTGTATCAAATCGATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttgatgattgattgacccttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
gattaac putative branch site (score: 2)
cctacactttccctt CT-rich tract
ttttagattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtcttaaagtgtaccttgcttcttatgtaaataatttttcttgctctttgatgattgattgacccttgccttttagattaacctacactttcccttagTGTGAGATGACAGGGGTTGTAGTGGATGTTGGGGATGGGGCTACTCATGTTGTACCTGTTGCAGATGGTTATGTTATTGGGAGCAGCATTAAGTCAATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - accttgc
- - - - - - - - - - - - - - - aaataat
- - - - - - - - - - - - - - - - - - - - -cttgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctacac
