Sequence
atgc intronic sequence ATGC exonic sequence...gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g49570.1 (Oryza sativa), 3'ss of exon 8
gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
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----------------gtaagttatgcttcagatttcaccaatttattagcagcagagtt--tcgttatgtattggttgttgttatttgaact-----agGATGTGGCGGGAAATTCGACTCCTAGCTGACACCAAGCCTGTGGTTGCTTCAATGTCTGATGTTGCTGCAAGTGGTGGGTACTACATGGCAATGGCTGCA
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
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----gta-agttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaacatattacgaattcttatt-tcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 1
---gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
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aaaacttat-ctgatctttgtcatgaaattatgatgctaagtgcaagtattttggtgagtttgcttgtttaactataaagttttg-ttgtcatgatc-tgcagGATGTGGAGAGAAATCAGGCTTCTGGCTGCCTCAAAACCAGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCA
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G07540.1 (Glycine max), 3'ss of exon 9
gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatg-----cagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA---------
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----------gtgatctttgtcatgaaattatgat-gctaagtgcaagt--attttgttgagttcgc-ttgtttaagtataaagtttttttgtcatgatcttctggatgtggagAGAAATCAGGCTTCTGGCTGCCTCAAAACCAGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCAGGAGTTATT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G22870.1 (Glycine max), 3'ss of exon 9
gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatga-gctcccactaa--ttggtccttaatt--tttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
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----tttcaaatacatctacaattgttgtcatgatgacagttttgctaagtattttgttgatgatgccaagaatcttgatcattatctggtgcatgatc-tgcagGATGTGGAGAGAAATCCGGCTTTTGGCTGCTTCAAAACCGGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G31180.1 (Glycine max), 3'ss of exon 8
gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcat-gacaaatataatgagctcccactaat--tggtccttaatttttatgattat--gcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
| ||| | | ||| | | | ||| | | | ||| | | | ||| ||| | || ||| | | | || || |||| |||||||| |||||| | ||| ||||||| |||||||| |||||||| ||||||||||||||||| || || ||||||||||||||||||||||||||
----atgatgat-agttttgctaagttttctgttgatttgcatgtttaggtgatcatattatgatgccaagaatcctaatcattatatggtgtcatgatctgcagGATGTGGAGAGAAATCCGGCTTTTGGCTGCTTCAAAACCAGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCT
upper sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G73990.1 (Arabidopsis thaliana), 3'ss of exon 8
-gcttgtacagatgaaaaaaga-gaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgat--tatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
| | || | | | | | || ||| || | || | |||| || | || | || | | | || || || ||| ||||||||||||||| |||| ||| ||||||| ||||||| |||||||| |||||||| |||||||| || || ||||| |||||||||||||||| |||
tatctatctagcctagaggtcatgtgtggatttgaatttaata--gctttggaaatccttctaggctttatta--taatcttcattattcataatggtatacagAATGTGGAGGGAGATCAAACTACTGGCTGAAACAAAACCCGTCATTGCGTCAATGTCAGATGTGGCAGCAAGTGGAGGCTACTACATGGCAATGGCTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
ttaatttttatgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - gaaaaaa
- - - - - - - - - - agaagga
- - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - -gcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - aaatata