Sequence
atgc intronic sequence ATGC exonic sequence...taactaggattatagttgagaactgttctgtattggagtataagaatgagccttgtaaatgctttaagttgatattgactagaggaagcgtctgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g36465.1 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------------------------------------------taactaggattatagttgagaactgttctgtattggagtataagaatgagc-cttgtaaatgctttaagttgatattgactagaggaagcgtctgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
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gtgagtgtcgttctcatcctcaacaatttctgtgggtaaatgagtttaagcaccatcatgtgatcgcttttccttaagagatttcatattgacttcttagtgctgattttgctgttttgtgcacttctgttt--ggctatggtaatttgcatttgcaactgttctcttgacataatgtccactggaaattctttt---agGATGGGCCATCCTATGTTCGAGTGTTCCTGAATATCTTGCGGAACATCTCCAAGGAAGATACTGTTGAATATGTGCTTGCCCTGATTGATGAGATGCTTG
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G06710.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------------taactaggattatagttg-agaactgttctgtattggagtataagaatgagccttgtaaatgctttaagttgatattgactag-aggaagcgtc-tgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
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gtaatagtttttaattttaattgttaaactattattttttaaaataataatactaatatgttaattgttgtgccttttgtttttaaagttgagtttgattgcaatgttgatttgaagtggatttaatttgtgattcccgagtttgctgtctactggtattgaaaattaaatatcgttgtgtggcagGATGGTCCCTCTTATGTTCGCGTGTTTGTTCGTGTTTTGCGTGACATTTTCAAGGAAGATACTGTGGAGTATGTTTTGGCACTGATAGATGAAATGCTTG
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G25740.1 (Glycine max), 3'ss of exon 2
----------------------------------------------------------------------------------taactaggattatagttgagaactgttctgtattggagt-ataagaatgagccttg-taaatgctttaagttgatattgactag-aggaagcgtc-tgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
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gtaatagtttttatttttattttaaatgttaaattattgttattattttttaaattaatatattatcgttatgttaattgtttgagtttgattactatttgaatttgaagtggatttaatttgtgattcccaagtttgctgtctattgtcaaatg-tattgaaaattagacatcgtcgtgtggcagGATGGTCCCTCTTATGTTCGCGTGTTTGTTCGTGTTTTGCGTGACATTTTCAAGGAAGATACCGTGGAGTATGTTTTGGCACTGATAGATGAAATGCTTG
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G42050.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------------------------------taactaggattatagttgagaactgttctgtattggagtataagaatgagccttgtaaatgctt--taagttgatattgact---agaggaagcgtc--tgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
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gtaagttttctacaactctttttgtctcctttcaaacagtttacatagactctcattataagccatgatctgtcattacttgagtcaatctctctctgtttattagtgattaaagttgtatagtgactatgctagcatttacctaccttgtcgttattaagtgatatatgtggtgccgttattgcagGATGGTCCAGCTTATGTTCATCTCTTTGTTAGCATCTTACGTGATATATTCAAGGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgagccttgtaaatgctttaagttgatattgactagaggaagcgtctgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
tattgac putative branch site (score: 2)
tttaagttgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taactaggattatagttgagaactgttctgtattggagtataagaatgagccttgtaaatgctttaagttgatattgactagaggaagcgtctgtgacagGATGGTCCTGCTTATGTTAGGGTGTTTGTGAGCATTTTACGTGATATATTCAAGGAAGAAACAGTTGAATATGTGCTGGCACTGATTGATGAAATGCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - -ataagaa
- - - - - - - - - - - - - - - - - - - - - - - - - ccttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaggaa