Sequence
atgc intronic sequence ATGC exonic sequence...tgcttaataaatttgtaaccattgcctgatcatttcagtcacatgagctgttgccaattttagtaacttgtcaaccaatagttaaatgaactttgtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0146g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g30900.1 (Oryza sativa), 3'ss of exon 3
-----tgcttaataaatttgtaaccattgcctgatcattt-cagtcacatgagctgttgccaattttagtaacttgtcaaccaatagttaaatgaactttgtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
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tattgtgtgagtctaatatgtgattttgaattaagtgtcgatataaatatgtatgaataatgaccgtactaaact-tcaataaattgttta-----tgtggtatagATCTACCTCCTGATAAGGAAGCATTGGATTGGAACACAAGGATGAAAATTGCGGCTGGTGCTGCTAAGGGACTAGAGTACCTTCATGACAAAGCAAATCC
upper sequence: Vv01s0146g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G44580.2 (Glycine max), 3'ss of exon 3
----tgcttaataaat-ttgtaaccattgcctgatcatttcagtcacatgagctgttgccaattttagtaacttgtcaaccaatagttaaatgaacttt-gtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
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aaaatgtttccttgttattatatctgtcttcttatgattg-actagtat---ctcatgctgataataactaatgtttaatcattattta--tggactggagggcagATCTTCCCCCGGATAAGGAACCATTAGATTGGAACACCAGGATGAAAATAGCTGCTGGGGCAGCAAAAGGATTGGAATACCTTCATGACAAAGCAAATCC
upper sequence: Vv01s0146g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G47570.1 (Glycine max), 3'ss of exon 3
--tgcttaataaatttgtaaccattgcctgatcatttcagtcacatgagctgttgcca--attttagtaacttgtcaaccaatagttaaatgaactttgtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
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atattttaaatagcatgttaatgtaaactg-ccttaacaaaca-atatgcaattgccataatgacaattgatgtttaac--attgtttattgatctctatgcagATCTTCCCCCTGATAAGGAACCACTAGATTGGAACACTAGAATGAAAATTGCTGTTGGTGCTGCAAAAGGATTAGAATACCTTCACGATAAGGCAAATCC
upper sequence: Vv01s0146g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G39370.2 (Glycine max), 3'ss of exon 2
----tgcttaataaatttgtaaccattgcctgatcatttcagtcaca-tgagctgttgccaattttagtaacttgtcaaccaatagttaaatgaacttt-gtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
| || | | | || | | | || | | | || | || | ||| || || | | | || || || ||| |||||| ||||||||||||| || || |||||||| | ||||||||||| || ||||| ||||| ||||| ||||| || || ||||||||| | || |||||||||| |||
taaactttgggtagagtggaaa----tacattattaccttaaacataatgcagttatgctgataataactaatgtttaatcattattta--tgaactggagtgcagATCTTCCCCCGGACAAGGAACCATTAGATTGGAACACCAGGATGAAAATAGCTGCTGGGGCAGCAAAAGGATTGGAATACCTTCACGACAAAGCAAACCC
upper sequence: Vv01s0146g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G13160.1 (Arabidopsis thaliana), 3'ss of exon 3
-tgct-taataa--atttgtaaccattgcctgatcatttcagtcacatgagctgttgccaattttagtaacttgtcaaccaatagttaaatgaactttgtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
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ttgttataatcattacctataaattatacatgtagacttaagttg-agaagtagtagttgcttgttttc-tttggcagcctctaac-aaat-aattttttccagATCTTCCACCGGATAAGGAGGCCTTAGATTGGAACATGAGAATGAAAATAGCTGCTGGTGCGGCGAAAGGATTGGAATTTCTACATGATAAGGCAAACCC
upper sequence: Vv01s0146g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ25419 (Selaginella moellendorffii), 3'ss of exon 3
tgcttaataaatttgtaaccattgcctgatcatttcagtcacatgagctgttgccaattttagtaacttgtcaacca-atagttaaatgaacttt-gtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
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---------------------------------------------gtttgtctattaatttagttgtttcctacatacgaaactgagtgagctttcgtgcagACGTGCCGGCTGACAAGGAACCGTTGGGCTGGAACACAAGGATGAAAATAGCTGCGGGAGCTGCCAGGGGACTGGAGTACCTGCATGACAAAGCAAATCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctgttgccaattttagtaacttgtcaaccaatagttaaatgaactttgtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
tagtaac putative branch site (score: 1)
aattttagtaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttaataaatttgtaaccattgcctgatcatttcagtcacatgagctgttgccaattttagtaacttgtcaaccaatagttaaatgaactttgtgcagATCTTCCACCTGATAAGGAACCGCTGGATTGGAACACAAGAATGAAGATAGCAGCTGGTGCAGCCAAGGGTTTGGAATACTTGCATGACAAAGCAAGCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - -aataaat
- - - - - - - gtaacca
- - - - - - - - - - - tgcctga
- - - - - - - - - - - - - - - - - - - tcacatg
- - - - - - - - - - - - - - - - - - - - - - - - - ttgccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaa