Sequence
atgc intronic sequence ATGC exonic sequencegtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g07190.1 (Oryza sativa), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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------------------------------------------------------------------------gtgagcaatctatttta--gtacttctactattatttacaacttccttatttttcttctactttactgatgcatccaaat-gcagCTCAAAGGATTTGCTTATGCGTGTTGTTGCACAGAATCTTTCTCCTGAATTGACCCTAGTAGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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--------------------------------------------------gtaagcatttcaatacttttatggaataattctttattctagagttt--atattattttatatttcttaagg--cactaatggctatgtcattg---tgaaattcagCTCAAAGGATGTGCTTATGCGCGTTGTGACACAAAATCTCTCTCCTGAGTTAACTCATGTAGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttca-ggaggtgttttgatgtctgtttat-atctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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---------------------------------------------------------------------------gtaagcattctatgttagtaaaacagtat-tgtccatgatccctttctaactgttggtgt-tgtataattatgtt---ctgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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------------------------------------------------------------------gtaagcattc-caacttcataacctttaattttcccctttttgatatttttt--tagttaataatga-tatatggttg---tggatttcagCTCAAAGGATGTGCTGATGCGTGTTGTGGCCCAAAATCTTTCTCCTGAGTTAACTCTAGTAGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G052277_T01 (Zea mays), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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------------------------------------------------------------------gtaagcattccaactttcttccctttaattttcctgtttttatatattt--ttgaagttaataatgaaaacatggttg---tgaatttcagCCCAAGGGATGTGCTGATGCGTGTTGTGGCCCAAAATCTTTCTCCTGAGTTAACTCTAGTAGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 4
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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------------------------------------------------------------------gtaagcattc-catcttcctaacctttaatttccccttt-ttgatattttttagttaataatgatatatggttgt-------ggattttagCTCAAAGGATGTGCTGATGCGTGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTTGTAGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttct------gactgtaactttgtatca----acaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggt--------ggttacttat--------gtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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gtaagatctttttc---agaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggt-ttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G32930.1 (Glycine max), 3'ss of exon 6
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatt--tcaggaggtgttttgatgtctgtttatatctac--tggtggttactt-atgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
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--------------------------------------------------------------tgattttcccatccgccccaatcctctgttactcatcccatccttcctaatttgcaccttaatcattgtaagatgcttaatgttttctatactcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
aactaac putative branch site (score: 1)
ttatatcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA