Sequence
atgc intronic sequence ATGC exonic sequence...gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattgagttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 1
------gctgactttgttaggtcataattgttcgc-atttttctcacaggttaaaattgagttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
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ttgcccgaaagttgtgtcaaatgac--ttgagcattgcttttttcacaaggtggttttga----tatcatgatatgcatcttaattacatgtgtttcttgttt-cagTTGACATCATCTCTGCAATTGAGTTTGACAAATCCGGTGACCATCTTGCCACTGGAGATAGAGGTGGTCGTGTAGTTTTATTTGAAAGGACTGACTCCAG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 1
gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattg--agttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
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tatccatttcttagatgaaggatttcttcaatgctag-acaagtacaaatgcacaattggttgcttctttgtgtgttgatctttatgctgttttgttt-cagTTGACATCATCTCTGCAATTGAGTTTGATAAATCTGGTGATCATCTTGCCACCGGAGACAGAGGAGGACGTGTTGTTTTATTTGAAAGGACAGATGCTCG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 1
gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattgagttattttctaactagtttgtctattttccaac-tgtcctat-ctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
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-tttagtgtctt-gttcatttcacttgatatttgttgtgtcggcttgatttgttcgccagctaaatcagtttgtatcttgatcagtatgctacatgtttcagTGGACATAATATCTGCAATTGAGTTTGACAAATCTGGGAATCATCTTGCTACTGGAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
------gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattgagttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
| || || | | |||| || | | ||| | || | | || | | || | ||| | || | || | | | ||||||| |||||||| || ||||| ||||| ||| |||| ||||||||||| ||||| ||| || || || |||||||||||| | || || ||| |
ttccacacctgctctgctctttaataagtga--ggaatttcacttcgtgtgagtgtagaat-gtcgccttgcatgttgatttaacactcttct---ttgttttcagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 1
gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattgagttat-tttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
|| | || | || | || | | | | | ||| | ||| || | || | | ||| | ||| | | ||||||| ||||| || ||||||||||||||||||||||| || ||| | || |||||||| || || || || || || | ||| | || || ||| ||
gcccatgtttgtttatcttggcgagggcgatagtatttgctgttggggattcatatatgcttgtttctcaaatataaattgttttgttgtatgaa-tgcagTTGACATCATCTCTGCTATTGAGTTTGATAAAACTGGAGAGCATTTGGCGACTGGAGACCGAGGAGGACGAGTTGTGCTGTTTGAGAGGACGGATGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaattgagttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
ttctaac putative branch site (score: 1)
tcctatct putative PPT
ttattttctaacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgactttgttaggtcataattgttcgcatttttctcacaggttaaaattgagttattttctaactagtttgtctattttccaactgtcctatctacagTTGATATCATATCAGCTATTGAGTTTGATAAAACTGGGGACCATCTTGCTACTGGAGATCGTGGGGGTCGGGTGGTTTTATTTAACAGAACTGATACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - tctcaca
- - - - - - - - - - - - - - - - - - - - - - - aaattga