Sequence
atgc intronic sequence ATGC exonic sequence...ttttgaaaaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os10g05690.1 (Oryza sativa), 3'ss of exon 3
ttttgaaaaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatca-agtgtataaaaacata---aggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
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-tatctataaaacttgggagtagatt---gattttaaccaaagtcaaaataacttatagtagtagtaattaagaaagtaattaagggatgaaatgcaaatgcagGGAGATAATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGCTGGCGACGGTGTACGTGCTGACGCTGACGCTGCCGTCGGCGTCGGCG
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G045057_T02 (Zea mays), 3'ss of exon 5
------------------ttttgaaaaacagtttccacttattccaaaattttaattattgt--ttagaaaattctaaatcaagtgtataaaaa--------cataaggt--------tttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
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gtaagcctcagctgccagcagtctatatctatacccacacacagcagaagtgaagtttaggtcacttcagagttcagagctacgtacgtacgtgatgagtgtcacagtgtgtgtacaaatgggccggttggtgcagGGAGATCATGCACGCGATGTGGAAACCGCACAAGTTCAAGCTCATCTACCTGGTGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCCGCCTCCGCC
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G129413_T01 (Zea mays), 3'ss of exon 1
---ttttgaaaaacagtttcca-cttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
|| | | | | ||| | | | | | || | | | | ||| | | ||| | | | || || ||||| ||||| || |||||| || ||||| ||||||||||| ||||||||||| || |||| |||||||| ||||| || || ||||| || ||
tgccaccgacacatgggtcccagcctgccacgaggc----accatgactcgttgcttccgttgttgtgtgcgcttctttttgacgttgatacatacatatgtagGGAGATCATGCACGCGATGTGGCGTCCTCAGAAGTTCAAGGCCATCTACCTGCTGGCGACGCTGTACGTGCTGACGCTGACCCTCCCTTCCGCCGCCGCC
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 5
---ttttgaaaaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
| | | | || || || | ||| || |||| || || ||| |||| || | ||||| | | | | ||| ||||||||||| || ||||||||||| || |||||||||||||||||| | ||||||||| |||||||| ||||| |||| || || || || || |||
aattataggagaaaagaaaaatattccttaaaagttcctggtatttttctcttaaaaacaaa--aagtaaattggagaataagacgt-gtgctggtgacacagGGAGATAATGCACGCGATGTGGAAACCTCAAAAATTCAAGGCCATATACTTACTGGCTACCCTGTATGTGATGACATTGACTCTCCCATCGGCAGCTGCA
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G00690.1 (Glycine max), 3'ss of exon 5
--ttttgaaaaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
| || || || | || || || || || | | | ||| || | || || | ||||| | | || | ||| ||||||||||| || ||||||||||| || |||||||||||||||||| | || |||||| |||||||| ||||| |||| ||||| || || || |||
aatattccttaaactttgctggtttttttgttgttaaaaaaataatg-atattcttccaagttaattgctggagtgaataagacgt-gtgttggtggcacagGGAGATAATGCACGCGATGTGGAAACCTCAAAAATTCAAGGCCATATACTTACTTGCTACCCTGTATGTGATGACATTGACTCTTCCATCGGCAGCTGCA
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 5
ttttgaaa---aacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacat-aaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
||| || || ||| || || | | || || | ||| |||| ||| | | | | | ||| | || || | | | | | ||| ||||||||||| || |||||||| || || || ||||||||| ||||| | ||||| ||| ||||||||||||||||||| ||||| || || ||||||
atttataatttaagcttttgcaattgtggtgatatgctactaattaattagt---ttcgagagtataag-acaaatatattaatgatacttgtactggtaacagGGAGATAATGCACGCGATGTGGAAGCCTCAAAAGTTCAAGGCCTTATACTTACTGGCAACCCTGTATGTGCTGACACTGACGCTTCCATCGGCAGCAGCA
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 5
------ttttgaaaaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
| || || | || | || | | | || ||| ||| | | | | ||| | ||| || | || || | | | ||| ||||||||||| || |||||||| || || || ||||||||| ||||| | ||||| ||| ||||||||||||||||||| ||||| || || ||||||
gtgatatgctgctaattaattagttaattttgagagaaatgaa--gttggctagctagtaatgagacaaatatattaa----tgagaattgtactggtaacaccagGGAGATAATGCACGCGATGTGGAAGCCTCAAAAGTTCAAGGCCTTATACTTACTGGCAACCCTGTATGTGCTGACACTGACGCTTCCATCGGCAGCAGCA
upper sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------------ttttgaa--aaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttt-tgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
|||| | | || | ||| ||| | || | ||| | || | ||| | | ||| | | || | ||| || ||||||||||||||||||| ||||||||||| ||||| |||||| ||||||||||| | || || | || |||||||| || || || || || ||| | ||
gtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
ttttgattttttttt CT-rich tract
tataaaaacataaggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgaaaaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttttgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA
- - -aaaaaca
- - - - - - - - ccactta
- - - - - - - - - - - - -ccaaaat
- - - - - - - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaa