Sequence
atgc intronic sequence ATGC exonic sequencegtaagattcttgataataaaccaactttcttttctaactttgctagctttaacatccttggagactaacaaaacaatgatgcagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCTGGGACACAAGAAGAAGGAGATAGACAATTTCATCACAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G27620.1 (Glycine max), 3'ss of exon 10
----gtaagattcttgataataaaccaactttcttttctaactttgctagctttaacatccttggagactaacaaaacaatgatgcagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCT--CTAGTTTTGTTTAAGAAGTTATACCTGGGACACAAGAAGAAGGAGATAGACAATTT-CATCACAAAT--------------------
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gtaagtattatattaattaataatgcaatatgtacatattcatcggttgataaaaatccattcatcaattaataaactaatca-----attttttcattaattt---tcagTTACTCAATCCCACTGAATTTTTTGAGGACATTGTAATTGAGCATGAATATGTTGAGTGCACTGGATCTGCAATTCAAGCTTTAGTTTTGTTCCAGAAGC
upper sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 12
-------gtaagattcttgataataaaccaactttcttttctaactttgctagctttaacatccttggagactaacaaaacaatgatgcagGT-ATGTTGAGTG---CACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAA--GTTATACCTGGGACACAAGAAGAAGGAGATAGAC---AATTTCATCACAAAT--
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gtaagtattaaattaattaataatgcaacacgtatgtatttataaattgataaaaaaaagtacttgattaataaactaattaactttgttggtgattcttagTTACTCAATCCCACAGAATTTTTTGCGGACATTGTAGTTGAACATGAATATGTTGAGTGCACTGGATCTGCAATCCAAGCTTTAGTTTTGTTCAAGAAGC
upper sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G27660.1 (Glycine max), 3'ss of exon 5
-----------gtaagattcttgataataaaccaactttcttttc--taactttgctagctttaacatccttgga--gactaacaaaacaatgatgcagGTA--TGTTGAGTGCACTGCATCAGCAA---TTCAGGCTCTAGTTTTGTTTAAGA-AGTTATACCTGGGACACAAGAAGAAGGAGATAGAC---AATTTCATCACAAAT--
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gtaagtattatataagttaataatgcatgcaacaagtacatattcattaaccgataaaaaaaagtcatccattaattaataaactaatcaattttgtcattactttttagATACTCAATCCCACAGAATTTTTAGGGAACATTGTGGTTGAACATGATTATGCTGAGTGCACTGGATCTGCTATTCAAGCTTTAGTTTTGTTTAAGAAGC
upper sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G24160.2 (Glycine max), 3'ss of exon 6
gtaagattcttgataataaaccaactttcttttctaactttgcta---gctttaacatccttggagactaacaaaacaatgatgcagGTATGTTGAGTG-CACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCTGGG-ACACAAGAAGAAGGAGATAGACAATTTCATCACAAAT--------------
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gtaagtattacattaattaataatgcaatatgtatgtactcataaaatgataaaaaatagtacttgtttgataaactaattaactttgt-tgttgattctcagTTACTCAATCCCACAGAATTTTTTGCGGACATTGTAGTTGAACATGAATATGTTGAGTGCACTGGATCTGCAATCCAAGCTTTAGTTTTGTTCAAGAATC
upper sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G32200.1 (Glycine max), 3'ss of exon 2
gtaagattcttgataataaaccaactttcttttctaactttgctagctttaacatcct--tggagactaacaaaaca-atgatgcagGTATGTTGAGTGC-ACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCTGGG-ACACAAGAAGAAGGAGATAGACAATTTCATCACAAAT
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gtaagtgttacattaattaatgttgtaatgtgtatgaattcattattaacaaaaaactattgttgcctaatttaatggataaattaactttgttaatttctagTTACTCAATCCTATGGAATTTTTTGCTGACATAGTAGTTGAGCACGAATATATTGAATGCACTGCATCAGCAATTCAGGCTTTA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctaactttgctagctttaacatccttggagactaacaaaacaatgatgcagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCTGGGACACAAGAAGAAGGAGATAGACAATTTCATCACAAAT
gactaac putative branch site (score: 1)
tttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattcttgataataaaccaactttcttttctaactttgctagctttaacatccttggagactaacaaaacaatgatgcagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCTGGGACACAAGAAGAAGGAGATAGACAATTTCATCACAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT