Sequence
atgc intronic sequence ATGC exonic sequence...ttgaatgaaaaaattttctttatcaattgattaaacttgttatatgctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g32850.2 (Oryza sativa), 3'ss of exon 1
ttgaatgaaaaaattttctttatcaattg-attaaactt---gttatatgctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
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-ttgtttcaatatctgataagatggcccacattagacttacagttgtctgtcttgttctagaatatcagctgt-tgatggtaccttttttatttcaa--taaagCTTGCAGGATCTGGTGTTTATGAGGAAGCATTACCATCAGGGGGCATAATAACTGGCATAGGACCTGTCCATGGACGATTATGTATGTTTGTGGCCAATG
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G702490_T01 (Zea mays), 3'ss of exon 1
---------ttgaatgaaaaaattttctttatcaattgattaaacttgttatatgctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
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atgtcagtatctaagagcatggcctagaatataaacttgttttcgttactgtacttcttgttctagactgcaaccg--ctgatgtta-----agttcttatg--tacagCTTGCAGGCTCAGATGTTTATGATGAAGCATTACCATCAGCAGGTATAATAACTGGCATAGGACCTGTTCATGGACGGTTATGTATGTTTGTGGCCAATG
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G702490_T02 (Zea mays), 3'ss of exon 2
--ttgaatgaaaaaattttctttatcaattgattaaacttgttatatgctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG-------
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tatctaagagcatggcctagaatataaacttgttttcgttactgtacttcttgttctagactgcaaccg--ctgatgtta-----agttcttatg--tacagcttgcagGCTCAGATGTTTATGATGAAGCATTACCATCAGCAGGTATAATAACTGGCATAGGACCTGTTCATGGACGGTTATGTATGTTTGTGGCCAATGACCCAAC
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G33620.1 (Glycine max), 3'ss of exon 1
ttgaatgaaaaaattttctttatcaattgattaaacttgttatatgctttgagataatttattgtctatctgcttttagttgtat---tttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
||| ||| || || || | || || || | | | | ||| | | | |||| | | |||| | | ||||||||||||| ||||| | ||||||||||| || || |||| |||| | | ||||| ||||| || |||||||||||||| |||||||||||||| ||||
--taatccaaagatgcactaagtct-tggaaaaagggtggtgattatgtgaaatgggtttgtgggtttgaccaggaaagttttttaaattttgagtgataaagCTTGCAGGACATGACTTGTATGAAGAACCCTTGCCTTCTGGTGGGGTTGTTACTGGGATAGGTCCCGTGCATGGGCGACTGTGTATGTTTGTGGCGAATG
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G14860.1 (Glycine max), 3'ss of exon 1
-ttgaatgaaaaaattttctttatcaattgattaaacttgttat-atgctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
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atcgga-aatgcagttagtcttggagataggtgggatcgggaattatgagaaatgggtatgtgg-gtttgactaggaaagcttctaacttttagtaataaagCTTGCAGGACATTACTTGTATGAAGAACCTTTGCCTTCTGGAGGGGTTGTTACTGGGATAGGTCCTGTGCATGGGAGACTGTGTATGTTTGTGGCGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
ttttttat CT-rich tract
ttttagttgtattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaatgaaaaaattttctttatcaattgattaaacttgttatatgctttgagataatttattgtctatctgcttttagttgtattttttatggttaaagCTTGCAGGCCATGAGCTATATGAAGAACCTTTACCATCTGCTGGGATAATCACTGGAATAGGACCTGTGCATGGGCGACTTTGTATGTTTGTGGCTAATG
- - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - tgctttg