Sequence
atgc intronic sequence ATGC exonic sequence...tcctttgaagttctttgttcaaattgtcctccttgaggagctccatcattttgttctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 21
----------------------------------------------------------------------------------------tcctttgaagttctttgttcaaattgtcctccttgaggagctccatcattttgttctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG----
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gtaagcctgtgcttcaattaatatgttgtttttcagttgtttggtcccagttatgactcaccatgtccttaccctcaagactagttgaacagctatgctattttaatgacatggttgaacttttaaccctttatacttgtcttggatagtttaaaacttaattgactggaa--attgttgttgtgcagTTCCTCCAGCATATTATGCACATTTAGCAGCGTTCCGAGCACGTTTCTATATGGAGCCAGATATGCAAGACAATGGCTCTGCAGGTGATGGCAATGGTTA
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 21
---------------------------------------------------------------------------------tcctttgaagttctttgttcaaattgtcctccttgag----gagctccatcattttgttctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG----
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gtaagcccgtgcttcaattaatatgtagtttttcggttgtttggtcccagttatgactcacccatgtccttaccctcaacactagttgaacagctatgatatttttaacatgattgaactttaacctttatacttgtcttggatagtttaaaacttaattgactggaa--attgttgttatgcagTTCCTCCAGCATATTATGCACATTTAGCAGCGTTTCGAGCACGTTTCTATATGGAACCAGATATGCAAGACAATGGCTCTGCAGGTGACGGTAATGGTCA
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 12
----tcctttgaagttctttgttcaaattgtcctccttgagga-gctccatcattttgttctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAG---GAGAATGGTTCAAATGGAGGTGGCAGTG-
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tctatattttatatttatatctttatatcatatttgtcatgattgaggtttcagcttgttttgcaaaatataaatct--taatggacttcat---tcatgtgcagTTCCTCCAGCGTATTACGCACATTTAGCAGCTTTTCGAGCACGTTTCTATATGGAGCCAGACCTGCAGCAGGAGAATGGCTCCTCAGGTGGTGGCTCCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 20
--tcctttgaagttctttgttcaaattgtcctccttgaggagctccatcattttgt-tctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAG---GAGAATGGTTCAAATGGAGGTGGCAGTG-
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tgaacacaaaggggacaaagggaaacaaattactttaatgtactattctatattatctatatttgtttcttacaacttagtggacttaat---tcatgtgcagTTCCTCCAGCGTATTATGCACATTTGGCAGCTTTTCGAGCGCGGTTCTATATGGAGCCAGACCTGCAGCAGGAGAATGGCTCCTCAGGTGGTGGCTCCAA
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 20
tcctttgaagttctttgttcaaattgtcctccttgaggagctccatcattttgttctatgagctgcaa-ctgaaatag--ctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACA---TGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG-
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----gtaaataacaacatttc--ttcttcttcttcgtgtac-ccgcaaatatga-cgaaaatcagcaaactcatatgttcttttattttctgatgttgtacagTTCCTCCAGCGTATTATGCTCATCTTGCAGCATTTCGAGCACGTTTCTACCTGGAACCGGAGATAATGCAAGACAACGGATCACCGGGTAAAAAGAACAC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: PP1S28_182V6.1 (Physcomitrella patens), 3'ss of exon 19
----------------------------------------------------------------------------------tcctttgaagttctttgttcaaattgtcctccttgag---gagctccatcattttgttc--tatgagctgcaactgaaat--agctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG----
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gtatgttcaaaaatcttctacgtcatataatggtttttgtctattcaacaaaatgtctcggctaagcgcattatttgaaatcttattcaacgttcttggtagacctgggattgggtgtatccgaatatcttgattttggttgatatcgcttagaatcaaaatgtaacgttttgtattgatgatttgcagTTCCTCCAGCATATTATGCACATCTAGCTGCTTTTCGTGCCAGGTTCTACATGGATCCAGAAGCTTCAGATACTGGTTCTGTTACTAGTGGGTTGGGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattttgttctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG
agctaaa putative branch site (score: 3)
ctcattt putative PPT
tgaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctttgaagttctttgttcaaattgtcctccttgaggagctccatcattttgttctatgagctgcaactgaaatagctaaatccatggctcatttgcagTTCCTCCAGCATATTATGCACATTTAGCAGCATTTCGAGCCCGATTCTACATGGAGCCTGACATGCAGGAGAATGGTTCAAATGGAGGTGGCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - tcctcct
- - - - - - - - - - - - - - - - - - - - ctccatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatggc