Sequence
atgc intronic sequence ATGC exonic sequence...ggttgatatattgtcagatgcatcttacaacatccatttgtttttcatcaaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 21
-----------------------------ggttgatatattgtcag-------atgcatctt-ac--aacatccatttgtttttcatcaaaatggtgattttt----------tcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
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gtaagcaagtgtttcaattgagtatacatgattaataaattgttaattagtacataaatcttcaccaaacagctaatttcttatgtggtgaatggtgagttgagaactgaagattattggctgatcattattattgactgtccaaccagATTATGATAGAATTATCAAGAATATTGAAAGGGGAGAGGCCAGGATATCACGGAAGGATGAAATTATGAGAGCCATCGGGAAGAAGTTAGACCGCTATAA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 21
ggttgatatattgtcagatgcatcttacaacatccatttgtttttcatcaaaatggtgattttt---tcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
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--ttataacatt-ttaattaaaagcaactgtttgcaattttgcatactgaagatcaaacttttcatactgacagattttgtgttttgatcattgttcaactagATTATGATAGAATTATAAAAAATATTGAAAGGGGGGAAGCAAGAATATCCCGCAAGGATGAGATTATGAAGGCTATTGGGAAGAAGTTAGACCGCTACAA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 21
ggttgatatattgtcagatgcatcttacaacatccattt-gtttttcatcaaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
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gtttgatgtgtgttgatttgccaaatgaagcttgaatttagttttccattaagatatcaagggtct-gtctgatttgtgtactttgatttatggtttgcagATTATGATAGAATTATTAAAAACATTGAAAGAGGGGAGGCAAGAATATCCCGGAAAGATGAGATCATGAAAGCTATTGGGAAGAAGTTGGACCGCTACAA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 21
ggttgatatatt----gtcagatgcatcttacaacatccatttgtttttcatcaaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
|| | |||| || |||| | || | ||| || || || ||||| | | | ||||| ||| || | | | | |||||||||||| || || || |||||||||||||| ||||| ||||| || |||||||||||||||||||||| ||||||||||||||||| |||||||
--ttaaaatatcaagggtttgatgtgtgttg-atttgccaaatggcttgaattaaaata-taaagggtctgtctgatttgtgtactttggtttatggtttgtagATTATGATAGAATTATTAAAAACATTGAAAGAGGGGAGGCAAGAATATCCCGGAAAGATGAGATCATGAAAGCTATTGGGAAGAAGTTGGACCGCTACAG
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 21
----ggttgatatattgtcagatgcatcttacaacatccatttgtttttcatcaaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
|| | | |||| | | | || | ||| ||| | | | |||| | || | | || ||| | || | || | ||| |||||||||| || || || || ||||||||||| || ||||| ||||||||| |||||||||||||||||||||| ||||| ||||||||||| ||||||||
agtgggataaggctttgttattaactttttttggaa---attactttctgtttagaatgtcaaggttct-gcctaatttgtgcattttgaatcattgtctgcagATTATGACAGAATTATTAAAAACATTGAAAGGGGGGAGGCAAGAATTTCTCGGAAAGATGAGATCATGAAAGCTATTGGAAAGAAGTTGGACCGCTACAA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 21
ggttgatatattgtcagatgcatcttacaacatccatttgtttttcatcaaaatggtg-attttttcgtctgctt--ttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
| | | |||| | || || ||| |||| | | | |||| | | || | || || | | || ||| || | ||| |||||||||| || || || || ||||||||||| || ||||| ||||||||| ||||||||||||||||||| || ||||| ||||||||||| ||||||||
-gataaggctttgttgctttaattttttc-tggaaattagtttctgtttagaatgtttcaaggttctgcctaattggtgcattttttaat-cattgtctgcagATTATGACAGAATTATTAAAAACATTGAAAGGGGGGAGGCAAGAATTTCTCGGAAAGATGAGATCATGAAGGCTATTGGAAAGAAGTTGGACCGCTACAA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 21
-----ggttgatatattgtcagatgcatcttacaacatccatttgtttttcatcaaaat-ggtgattttttcg--------tctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
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gttagtaactttagattgttaagtaaagttaatgag---tgtttgcagtgcgacaaagttggatatttatcctaagtaagctctgcctcttgttttcctttgtaaaaattgtagATTACGACAGAATCATCAAGAATATTGAGAGAGGGGAAGCAAGAATCTCTAGGAAAGATGAAATCATGAAAGCTATTGGGAAGAAACTGGATCGCTACAG
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 3'ss of exon 21
---------------ggttgatatattgtcagatgcatcttaca-acatccatttgtttttcatc----aaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
|| || || | || | ||||| || | | || | | |||| | | | || | || | | | || | || | | ||| |||||||| ||||| ||||||||||| || |||||||| || || ||||||||||| || |||||||| || || |||||||| ||||||||||||
gtaagtaacacctttcaatgctaagttatgcagtgt-ttttacatgtttctaagtaattcctacctccaaaaagagcttatgctaagtaagtttatcatctttccctctaaata-tgtagACTATGATAGAATCATTAAGAACATTGAGAGGGGAGAGGCAAGGATCTCTAGGAAAGACGAAATCATGAAGGCCATAGGGAAGAAACTGGATCGCTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcaaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
ttttaac putative branch site (score: 2)
tttctcc putative PPT
ttttaaccattaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggttgatatattgtcagatgcatcttacaacatccatttgtttttcatcaaaatggtgattttttcgtctgcttttaaccattaaatacaatttctccagATTATGATAGGATCATCAAGAACATTGAAAGAGGAGAGGCTAGAATTTCTAGGAAAGATGAGATCATGAAAGCAATTGGGAAGAAGTTGGATCGCTACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - gatgcat
- - - - - - - - - - - - - - -acatcca
- - - - - - - - - - - - - - - - - - - - - - - -tcaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataca