Sequence
atgc intronic sequence ATGC exonic sequencegtatgttttctctaaaaagaaaaataaaattactttgttttggttgatagggcaacattgtagataacataatcttttttccgattgtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G05720.1 (Glycine max), 3'ss of exon 1
gtatgttttctctaaaaagaaaaataaaattactttgttttggttgatagggcaacattgtagataacataatcttttttccgattgtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
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-----------------------------ttttgttgtggatactaattgggaggcagacaagagagtattgtgcgaaattttttagtgatgactgacgagatgg--------------ttttgtctgggtaa-atttgtgtagGTGGATTTGACACAGCACATGCAGCTGCTCG
upper sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G39520.1 (Glycine max), 3'ss of exon 2
-------gtatgttttctctaaaaagaaaaataa-aattact-ttgtt-ttggttgatagggcaacattgta--gataacataatctttt---ttccgattgtgat---gactgatgagatgggttttccatttttcctttttctctttggtg--tctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
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gtgagtattacgatgtggatgattgcatatgtggtagttgttgttgttgttgtacacttgtgctgttttattttaataatgttttgttttggatacaaattgggaggcagactaatttttagggatgactgacgagatggttttgtctgggtaaatttgtgcagGTGGATTTGACACAGCACATGCAGCTGCTCG
upper sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G18640.1 (Glycine max), 3'ss of exon 2
gtatgttttctctaaaaagaaaaataaaattactttgttttggttgatagggcaacattgtagataacataatcttttttccgattgtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
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-------------------aagagtgtgagtg-tgtgtgttgtgtg-tgggtggggattttt----------ttttttttttttttgtggtgactgacttgatggtttttg-------------tctgggtaaaatttgtctagGTGGATTTGACACAGCACATGCGGCTGCTCG
upper sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G18170.1 (Glycine max), 3'ss of exon 2
gtatgttttctctaaaaagaaaaataaaattactttgttttggttg-atagggcaacattgtagataacataatcttttttccgatt-gtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
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---------------------------------tgtgatgtggtggtagagacaaagagtgtgggtgggattttttttttttttttttgtggtgactgacttgatggtttttg-------------tctgggtaaaatttgtctagGTGGATTTGACACAGCACATGCGGCTGCTCG
upper sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G36920.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgttttctctaaaaagaaaaataaaattactttgttttggttgatagggcaacattgtagataacataatcttttttccgattgtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
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---------------------------------------------------gtaattttattttcctcatgtttttttttgt-attttggtg-ttga-aaaatgtcatcataattttaatttattat----aatctctgaatagGTGGATTTGACACTGCTCATGCAGCAGCTCG
upper sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G67180.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgttttctctaaaaagaaaaataaaattactttgttttggttgatagg-gcaacattgtagataacataatcttttttccgattgtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
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-------------------------------------gtatggttcatatacataaaaattacgatttaacttttgtgtcttcgatttatttgacaaaacaaa-gggttttgtttccttctaattgttgttacatatatatgcagGTGGATTTGACACTGCACATGCTGCTGCTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
gactgat putative branch site (score: 3)
ttttccatttttcctt putative PPT
attttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttttctctaaaaagaaaaataaaattactttgttttggttgatagggcaacattgtagataacataatcttttttccgattgtgatgactgatgagatgggttttccatttttcctttttctctttggtgtctgaatagGTGGATTTGACACCGCACATGCAGCTGCTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT