Sequence
atgc intronic sequence ATGC exonic sequence...cttcctttattttttatttttttaaaaaaccattccctggaattttggggtgggaaagatgctaaccactttgtcttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 9
-cttccttta--ttttttatttttttaaaaaaccattccctggaattttggggtgggaaagatgctaaccactttgtcttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
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cctgctatcaggattcatgtacatttaatcaattctcagtgtataagttcctttctttgacttaataattcttatgtttattactt-tatcaaaatt--gcagAGTGTTCCTGTGCAAGCTGGGCAAACACCCCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGAGGGAAGCTCAATGCCTTTGAGTCTCTTGAGCTAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------------------------cttcctttattttttatttttttaaaaaaccattc--cctggaattttggggtgggaaagatgctaaccactttgtcttcttctggtgtctaat-ttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
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gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 11
---------------------------------------------------------------------------cttcctttattttttatttttttaaaaaaccattccctggaattttggggtgggaaagat------gctaaccactttgtcttcttctg---gtgtctaattttt-------gcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
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gttttgtatataagatacagccatcaaatattttgttcgtgctctttcatcaacaaatttaacctagacaatcatctttgcttgttttgagggataaaggataaaaggaatttgaactgtttaggtttgttctttttcttggtcaattaggctatcatggttaaagtgtgtcaatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 11
------------------------------------cttcctttattttttattttttt---aaaaaaccattccctggaattttggggtgggaa---agatgctaacc----actttgtc---ttcttctggtgtctaa---------------ttt---ttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
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gtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattcacagagattcattttctggttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCTCTGTTGCAGTATTTTGGAACACTTTTAACAAGGGGAAAGCTGAATGCCTTTGAATCATTAGAATTAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 11
------------------------------------cttcctttattttttattttttt---aaaaaaccattccctggaattttggggtgggaa---agatgctaacc----actttgtc---ttcttctggtgtctaa---------------ttt---ttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
||| |||| || || || || | | | |||| |||| ||| || | || || | || || ||| | || | ||| ||| ||| | ||||||||||||| ||||| |||||| ||||| |||||| | ||||| |||||||||||| |||| || |||||| | ||||| ||||| ||||| ||||| |
gtttcttgataagatgttgctatctgggaattttctcttgcttttttagctacttcattcacagagattcattttctggttgtttactgtttgcctttaggtgatgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttatgtggcagAGTGTTCCTGTGCAAGTTGGGCAAACTCCTCCTTTGTTGCAGTATTTTGGAACACTTTTAACAAGGGGAAAGTTGAATGCCTTTGAATCATTAGAATTGT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 11
cttcctttattttttatttttttaaaaaaccattccctggaattttggggtgggaaagatgcta-----accactttgt-----cttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
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--gtatatgttccatattcaagcaaagaatc-ctctgtgaacatgttgtctataatgtatgtttgtaacaccagtctgaaactacaacatcacactttacaattttgcagAGTGTTCCTGTACAAGCAGGGCAAACTCCTCCATTGTTACAGTATTTTGGGACCCTTTTGACTAGAGGGAAGCTCAATTCATATGAGTCTTTGGAACTAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
cttcctttattttttatttttttaaaaaaccattccctggaattttggggtggga-aagatgctaaccactttgtcttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
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------gtgtctatttcatatccaagcaactatgtgtaaacatgtttatttatgatgaaatgttggtaacaccaattt-ttcaactctataatttt-gcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggggtgggaaagatgctaaccactttgtcttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
tttttgc CT-rich tract
tctaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcctttattttttatttttttaaaaaaccattccctggaattttggggtgggaaagatgctaaccactttgtcttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - -ccattcc
- - - - - - - - - - - - - - - - - - - - - - -tggggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaga