Sequence
atgc intronic sequence ATGC exonic sequence...tgaaatcatgtttaaccttctatacttgccaaactagtcataattacttgccgaaagagaaaacctgcacctgtttactaaaacaaagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 11
--------tgaaatcatgtttaaccttctatacttgccaaactagtcataattacttgccgaaagagaaaacctgcacctgtttactaaaacaaagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA-
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atctagcctggtaacattacttgttttagatccctgtatgactgct--tgatttctt------agaacttgctaacaattttttttttaccaaatatgcattttacagGTTCTGGAAAATCAAAAAGTTTACAAAACTTAACAATGCAACTCAGAAAGTGTTGTAACCATCCCTACCTCTTCGTGGGCGATTATGATATGTA-TAGACG
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G00640.2 (Glycine max), 3'ss of exon 10
-tgaaatcatgtttaacct-tctatacttgccaaactagtcataattacttgccgaaagagaaaacctgcacctgtttactaaaacaaagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA
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ctgtaaacattaataattggtttgtacttcctt--ctatgcttacctaattcttgggaactcgttttacaaactttttactaatctagagaccaatctgtagGTTCTGGAAAATCAAAAAGTCTACAGAACTTGACAATGCAACTCAGAAAATGTTGTAACCATCCCTACCTCTTTGTGGGTGACTATGATATCCATAAACA
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G39630.1 (Glycine max), 3'ss of exon 8
tgaaatcatgtt--taaccttctatacttgccaaactagtcataattacttgccgaaagagaaaacctgc-acctgtttactaaaacaaa-gtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA-
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-gtacctagcctggtaacattacttgttttagatccctgt-atgactgcttgatttcttagaa--cttgctaacaattttttataccaaatgtgcattttacagGTTCTGGAAAATCAAAAAGTCTGCAAAACTTAACAATGCAACTCAGAAAGTGTTGTAACCATCCCTATCTCTTTGTGGGAGATTATGATATGTA-TAGACG
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 10
---------tgaaatcatgtttaaccttctatacttgccaaactagtcataattacttgccgaaagaga---aaacctgcacctg--tttactaaaaca-aagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGG---AGATTATAATATCTGGCAGAA
| || ||| || || || || ||| || | | ||| | || | | ||| |||| |||| || || || ||||||||||||||| ||||| ||| | || || || | |||||| | ||||||||||||||||| || || ||||||||||| ||| || ||||| ||| |
gtttgtagcttaactcacgtatactctctccctaatgttgcactcatctttgaggtaagagaaaatgaatcagaaagaggagctgattttatgcaaacgtaatcaccatgtgcagGATCTGGGAAATCAAAGAGTCTGCAAAATCTAACGATGCAATTAAGAAAGTGTTGTAACCATCCTTATCTATTTGTTGGAGGAGACTACAATATGTGGAA---
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G19310.1 (Arabidopsis thaliana), 3'ss of exon 10
---tgaaatcatgtttaaccttctatacttgccaaactagtcataattacttgccgaaagagaaaacctgca--cctgtttactaaaacaaagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA
|| | | || | |||| || || ||||| | | | | | | | || | | | || |||| | || |||||| |||||| ||||| ||| | ||||| ||| | |||||| | ||||||||||||||||| || |||||||| ||||||| || ||| | | ||
gtttgtagctaaacttgaacttccattctctccaaaatgctttcatctttcggtaaagaacataagtcaggaagttaaattgctaatg-gagtccttatgtgcagGCAATGGGAAATCAAAGAGTCTGCAGAATCTGACAATGCAATTAAGAAAGTGTTGTAACCATCCGTACCTATTCGTTGGAGCAGATTATAACATGTGTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgccgaaagagaaaacctgcacctgtttactaaaacaaagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA
tactaaa putative branch site (score: 1)
tttactaaaacaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaatcatgtttaaccttctatacttgccaaactagtcataattacttgccgaaagagaaaacctgcacctgtttactaaaacaaagtacgatttgcagGATCTGGGAAGTCAAAAAGTTTACAGAACCTGTCCATGCAACTCAGAAAGTGTTGTAACCACCCATACCTATTTGTTGGAGATTATAATATCTGGCAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- aaatcat
- - - - - - - -ccttcta
- - - - - - - - - - - - - - ccaaact
- - - - - - - - - - - - - - - - - - - - - - - cttgccg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa