Sequence
atgc intronic sequence ATGC exonic sequencegtaagattcttgataatagaccttcttttctaactctactagatttaacttccttggagactaacaaaacgatgatccagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCCCGAACACAGGACGGAGGAGATAGACAATTTCATCACAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA03G27620.1 (Glycine max), 3'ss of exon 10
------gtaagattc-ttgataatagaccttcttttctaactctactagatttaacttccttgga-gactaacaaaacgatga-----tccagGTATGTTGAGT---GCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCCCGAACACA--GGACGGAGGAGATAGAC---AATTTCATCACAAAT--
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gtaagtattatattaattaataatgcaatatgtacatattcatcggttgataaaaatccattcatcaattaataaactaatcaattttttcattaattttcagTTACTCAATCCCACTGAATTTTTTGAGGACATTGTAATTGAGCATGAATATGTTGAGTGCACTGGATCTGCAATTCAAGCTTTAGTTTTGTTCCAGAAGC
upper sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 12
-------gtaagattcttgataatagaccttcttttctaactctactagatttaacttccttggagactaacaaaacgatgatccagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCCCGA-ACACAGGACGGAGGAGATAGACAATTTCATCACAAAT--------------
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gtaagtattaaattaattaataatgcaacacgtatgtatttataaattgataaaaaaaagtacttgattaataaactaattaactttgttggtgattcttagTTACTCAATCCCACAGAATTTTTTGCGGACATTGTAGTTGAACATGAATATGTTGAGTGCACTGGATCTGCAATCCAAGCTTTAGTTTTGTTCAAGAAGC
upper sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA03G27660.1 (Glycine max), 3'ss of exon 5
----------------gtaagattcttgataatagaccttcttttctaactctactagatttaacttccttggagactaacaaaacgat-gatccagGTAT-----GTTGAGTGCACTGCATCAGCAA---TTCAGGCTCTAGTTTTGTTTAAGA-AGTTATACCCCGAACACAGGACGGAGGAGATAGAC---AATTTCATCACAAAT--
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gtaagtattatataagttaataatgcatgcaacaagtacatattcattaaccga-taaaaaaaagtcatccattaattaataaactaatcaattttgtcattactttttagATACTCAATCCCACAGAATTTTTAGGGAACATTGTGGTTGAACATGATTATGCTGAGTGCACTGGATCTGCTATTCAAGCTTTAGTTTTGTTTAAGAAGC
upper sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA08G24160.2 (Glycine max), 3'ss of exon 6
gtaagattcttgataatagaccttcttttctaactctactagatttaacttccttggagactaacaaaacgatgatccagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTC-TAGTTTTGTTTA-AGAAGTTATAC-----CCCGAACACA--GGACGGAGGAGATAGACAATTTCATCACAAAT--------------
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gtaagtattacattaattaataatgcaatatgtatgtactc-ataaaatgataaaaaatagtacttgtttgataaactaattaactttgttgttgattctcagTTACTCAATCCCACAGAATTTTTTGCGGACATTGTAGTTGAACATGAATATGTTGAGTGCACTGGATCTGCAATCCAAGCTTTAGTTTTGTTCAAGAATC
upper sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G32200.1 (Glycine max), 3'ss of exon 2
gtaagattcttgataatagaccttct----tttctaactctacta--gatttaacttccttggagactaacaaaacg-atgatccagGTATGTTGAGTGC-ACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCCCGA-ACACAGGACGGAGGAGATAGACAATTTCATCACAAAT
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gtaagtgttacattaattaatgttgtaatgtgtatgaattcattattaacaaaaaactattgttgcctaatttaatggataaattaactttgttaatttctagTTACTCAATCCTATGGAATTTTTTGCTGACATAGTAGTTGAGCACGAATATATTGAATGCACTGCATCAGCAATTCAGGCTTTA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctaactctactagatttaacttccttggagactaacaaaacgatgatccagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCCCGAACACAGGACGGAGGAGATAGACAATTTCATCACAAAT
gactaac putative branch site (score: 1)
tagatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattcttgataatagaccttcttttctaactctactagatttaacttccttggagactaacaaaacgatgatccagGTATGTTGAGTGCACTGCATCAGCAATTCAGGCTCTAGTTTTGTTTAAGAAGTTATACCCCGAACACAGGACGGAGGAGATAGACAATTTCATCACAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT