Sequence
atgc intronic sequence ATGC exonic sequence...gttacaaatgcaaaaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatgttggattttccatatgaacccttccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g01290.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g71960.1 (Oryza sativa), 3'ss of exon 11
-gttacaaatgcaaaaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatgttggattttccatatgaaccct--tccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
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aaatgaagtgtcacagattt---tgttcataaattgagttgttcatttagcgtgtgccagtgaaagtgatttttgatccttctatttgaaccatgtctttcagATAAAGCATTTGCCTGTTGGGGATGGTATTTGGATTGCTCGTGATAGAAAGCTTCACACAGAGTATGTTCTTGATTTCATTGTTGAAAGGAAGAATGTTG
upper sequence: Vv13s0019g01290.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G361501_T01 (Zea mays), 3'ss of exon 6
gttacaaatgcaaaaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatg--ttggatt-ttccatatgaacccttcca--cagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
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--aacatatataaaa---gaagggctatgatgcttattttgatatttttgtgttgtcttccagagaaagtgattcgtattcttctgtttaaaccttgtcatccagGTTAAACGTTTGCCTGTAGGTGATGGCATATGGATCGCTCGTCATAAAAAAAATTTTACAGAATATGTTCTAGATTTTATTGTTGAAAGGAAAAATGTTG
upper sequence: Vv13s0019g01290.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G20970.1 (Glycine max), 3'ss of exon 10
---------gttacaaatgcaa---aaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatgttggattttccatatgaacccttccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
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actttagctgatttggatggaacttgcatttaaatgttgta-tctgagctcctttatttagaa----gatagtaaaaataatctagaaatt-------ggttccatatatagGTTCGACGATTGCCAGTCGGAGATGGGATTTGGATAGCGCGCCATAAAACTCTGAACAGTGAATATGTGTTGGATTTTATTGTTGAGAGGAAGAAAACTA
upper sequence: Vv13s0019g01290.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G30870.1 (Arabidopsis thaliana), 3'ss of exon 10
gttacaaatgcaaaaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatgttggattttccatatgaacccttccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
| ||| | | || || |||| | |||| | || ||| || | ||| | |||| || |||||||||| |||||||| || ||| |||| ||| | ||||| ||||| | ||||| | |||||||||||| || ||||||| |||||||||||| |||
---------gtttgcatttgatttcttggatagatgtcaacagattcggaattacggaga-ataattgg----aaaatttgtgt-tgaa----tctgtagGTTAGACGATTACCAGTCGGGGATTGTATATGGATTGCTCGGCATAAGTACCTTGAGACTGAATATGTTCTAGACTTTATTGCTGAGAGGAAGAACGTTG
upper sequence: Vv13s0019g01290.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G39770.1 (Arabidopsis thaliana), 3'ss of exon 28
gttacaaatgcaaaaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatgttggattttccatatgaacccttccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA-----------------------------------------
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---------------------------------atgtcaacagattccaacttacaaaaac-taactggag--agagtgtttgt-tgaa----tctgtaggttagacgattaccagttggggattgtatctggcttgctagGCATAAGTACCAACAAGATGAATATGTTCTCGACTTTATTGTTGAGAGGAAGAACGTTGATGATATGCGCTCGTCAATTATGGATAATCGCTACAAGGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaggattagagtgatatagctgatgttggattttccatatgaacccttccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
agctgat putative branch site (score: 4)
cccttccac putative PPT
tgatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacaaatgcaaaaattgaaatgtgaaaatgtttgcttttttattcaggattagagtgatatagctgatgttggattttccatatgaacccttccacagGTTAGACGGTTACCAGTTGGAGATGGTATCTGGGTAGCTCGTCATAAACATCTTGACAGTGAATATGTTCTTGATTTTATTGTTGAGAGGAAGAATGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - -gcaaaaa
- - - - - - - - - - - - -gaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatgt
