Sequence
atgc intronic sequence ATGC exonic sequencegtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
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-------------------------------------------------------------------------gtacataacttgctgagttgctggagtttttcacttgc-ttgctcagtg-tttaatttgttttttcctt-----tacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
upper sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G368908_T03 (Zea mays), 3'ss of exon 1
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
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-----------------------------------------------------------------------gtatgtctgggggatgagatgctggagt-gtttcacttgc-ttgctcagtgtttaatatttttgttgccct----tcccagAATGCTACACAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCTGCTCATGAAGTTGAGGAAATTG
upper sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G05780.2 (Arabidopsis thaliana), 3'ss of exon 4
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctcca--ctgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
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----------------------------------------------gttaaggaggtaag--atacaaaccct---tccaaatattgtcccttttgtaaagttgtatgcttattataatcagatgctgatta-aacacttctttttctctccagAATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCG
upper sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
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------------------------------------------------------gtaagatacaaacccttccaaatattgtcccttt----tgtaaagttgtatgcttattataatcagatgctgatta-aacacttctttttctctccagAATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCG
upper sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 3'ss of exon 4
gtacaactaa-gaatatcataatgtttttt---catttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgttta-agaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
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gtgaaagaggtaaataccagccaattttctaaccattttact--tgctcgactgttaagttgcatc-tgacatacttga----------tttactttctgcattagttatatccatatatctaattgccttgatccga-acttctctct--ctgcagAATGCTACCCAGAAAAGCCAACAGGTTTTTGTACACGTGCCTACAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
upper sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G11270.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgttta-agaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
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-----gtaaataccagccaattttctaaccattttact--tgctcgactgttaagttgcatc-tgacatacttga----------tttactttctgcattagttatatccatatatctaattgccttgatccga-acttctctct--ctgcagAATGCTACCCAGAAAAGCCAACAGGTTTTTGTACACGTGCCTACAGAAATTGCAGCTCATGAAGTTGAGGAAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
ctctaat putative branch site (score: 3)
atattactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT