Sequence
atgc intronic sequence ATGC exonic sequence...tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G36440.1 (Glycine max), 3'ss of exon 11
--tttgtagatgtcagcttttaattgtcagacacatccgtcaagta-gcaagattttgtgaccaattgtcc-ttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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tgtccattaacattttctttttcaagtcttgttcat--gtcatgttcgataagtgctatgagtttttattcattaataatggcttgtttg--aaatattcacagAGCTCAGTGTTAGCACTGGAGGAGTCAGCACTAGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G08230.1 (Glycine max), 3'ss of exon 9
tttgtagatg-tcagcttttaattgtcagacacatccgtcaagtagca-agattttgtgaccaattgtcc-ttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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-taacactttcttaagtcttgttcatgtcatgggatcatcttgttgaataagtgctgtgagtttttattcattaatattggcttgtttg--aaatattcacagAGCTCAGTGTTAGCACTGGAGGAGTCAGCACTCGACACTGATCAGGTTGAGAACCTCATAAAGTTTTGTCCTACAAAAGAGGAGATGGAATTACTTAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G58160.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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gtaatataaagctagacaggtttaggttgtactgtaatcatagctttttaatctggtacaatgtctatgtgtcg---ctatgtctgccatgataattaaaagctaagtgtctctaaaatatta-cagAACTCAGTGCTTAACCTGGAGGAGTCGGCTCTTGATGCTGATCAGGTTGAGAACCTAATTAAGTTTTGCCCAACAAGAGAAGAGATGGAGTTACTAAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ14916 (Selaginella moellendorffii), 3'ss of exon 3
tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttg-tggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
||| | | | | |||| ||| | || || ||||| || | || | ||| ||| | ||||| |||||||||||||| || || ||||||||||||||||| || ||||| || || |||
------------------------------------------------------gtggctatctacattatgcaatgtggtttttacttgagCACT--CAGAAAGCAATACT------ATGGGA--CAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ37653 (Selaginella moellendorffii), 3'ss of exon 6
tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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--------------------------------------------gtaagttgctctctaca-ttatgcaatgtggtttttactt----gagcac--tcagAAAGCAATACTAGCGTTGGATGGGGCAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ33545 (Selaginella moellendorffii), 3'ss of exon 6
tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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--------------------------------------------------gtaagttgctctctacattatgcaatgtggtttttacttccaactctcagAAAGCAATACTAGCGTTGGATGGGACGGTACTGGATGTTGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACGAAGGAGGAGATGGAAACGCTCAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ15040 (Selaginella moellendorffii), 3'ss of exon 6
tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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--------------------------------------------gtaagttgctctctaca-ttatgctatgtggtttttactt----gagcac--tcagAAAGCAATACTAGCGTTGGATGGGACAGTACTGGATGTAGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACAAAGGAGGAGATGGAAACGCTCAAG
upper sequence: Vv11s0016g00160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ36895 (Selaginella moellendorffii), 3'ss of exon 6
tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
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--------------------------------------------------gtaagttgctctctacattatgcaatgtggtttttacttccaaccctcagAAAGCAATACTAGCGTTGGATGGGACGGTACTGGATGTTGATCAGGTTGATAATCTGATCAAGTTTTGTCCAACGAAGGAGGAGATGGAAACGCTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
ccttaac putative branch site (score: 3)
ttaacaatcataaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtagatgtcagcttttaattgtcagacacatccgtcaagtagcaagattttgtgaccaattgtccttaacaatcataaatttgtggaacatgaacagAATTCAGTGCTTGCTTTAGAGGATTCAGCTTTAGATGTTGATCAGGTTGATAACCTCATAAAGTTTTGTCCAACAAAAGACGAGATCGAGCTACTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - -cacatcc
- - - - - - - - - - - - - - - - - - -tcaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtgga