Sequence
atgc intronic sequence ATGC exonic sequencegtatccatgttattctcgttatggattgatcatttgctttttagattggtaatgattcatgtacagaggaggttcccaaatttccatttttgacttgacacaactaatagaatttcggatgttagcagATGGACAGAACATCTATTCTTGGAGATGCCATAGATTATATGAGAGAGCTCCTAGAAAGAATGAATAAGTTGCAAGAAGAACAAATGCAAGCAGGCACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G33590.2 (Glycine max), 3'ss of exon 1
gtatccatgttattctcgttatggattgatcatttgctttttagattggtaatgattcatgtacagaggaggttcccaaatttccatttttgacttgacacaactaatagaatttcggatgttagcagATGGACAGAACATCTATTCTTGGAGATGCCATAGATTATATGAGAGAGCTCCTAGAAAGAATGAATAAGTTGCAAGAAGAACAAATGCAAGCAGGCACAA
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----------------tttcatg-attgattatttttttctta--ccaacact--tgcatttgttgtttgatttgttctataaccttgtttacactaacatga-------gacaacaaactttgacagATGGACAGGACCTCCATTCTTGGAGACACCATTGATTACATGAAAGAGCTTCTAGAAAGGATAGGCAAGTTGCAAGAAGAAGAAATGGAGGAGGGAACAA
upper sequence: Vv17s0000g03550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G02390.1 (Glycine max), 3'ss of exon 1
gtatccatgttattctcgttatggattgatcatttgctttttagattggtaatgattcatgtacagaggaggttcccaaatttccatttttgacttgacacaactaatagaatttcggatgttagcagATGGACAGAACATCTATTCTTGGAGATGCCATAGATTATATGAGAGAGCTCCTAGAAAGAATGAATAAGTTGCAAGAAGAACAAATGCAAGCAGGCACAA
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----------------tttcatg-attg-ttatttttttttta--ctaacact--tgcatttgttgtttgatttgt----tctataaccttaatttgaactaac--atgagaatacaaactttgacagATGGACAGGACCTCCATTCTTGGAGACACAATTGATTACATGAAAGAGCTTCTAGAAAGGATAGGTAAGTTGCAAGAAGAAGAAATAGAGGAGGGAACAA
upper sequence: Vv17s0000g03550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G65640.2 (Arabidopsis thaliana), 3'ss of exon 1
gtatccatgttattctcgttatggattgatcatttgctttttagattggtaatgattcatgtacagaggaggttcccaaatttccatttttgacttgacacaactaatagaatttcggatgttagcagATGGACAGAACATCTATTCTTGGAGATGCCATAGATTATATGAGAGAGCTCCTAGAAAGAATGAATAAGTTGCAAGAAGAACAAATGCAAGCAGGCACAA
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--------------------------tgttc--ttacttttaagggaatctacagaaccggctgaaaagtgataaatcatttaaaagtgttttaaaataatgattattggtatgttcaaaaaaatcagATGGACAGGACATCGATATTAGGAGATGCCATAGATTACATGAAAGAGCTTTTAGACAAAATCAACAAATTACAAGATGAGGAACAAGAACTTGGAAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcccaaatttccatttttgacttgacacaactaatagaatttcggatgttagcagATGGACAGAACATCTATTCTTGGAGATGCCATAGATTATATGAGAGAGCTCCTAGAAAGAATGAATAAGTTGCAAGAAGAACAAATGCAAGCAGGCACAA
aactaat putative branch site (score: 2)
aactaatagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccatgttattctcgttatggattgatcatttgctttttagattggtaatgattcatgtacagaggaggttcccaaatttccatttttgacttgacacaactaatagaatttcggatgttagcagATGGACAGAACATCTATTCTTGGAGATGCCATAGATTATATGAGAGAGCTCCTAGAAAGAATGAATAAGTTGCAAGAAGAACAAATGCAAGCAGGCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC