Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgtaatttttttaccatttccatttttagccaatatgatgtgctataaattttctttgttgctataatggtatttctttgtttattttccatgttgtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os01g64820.1 (Oryza sativa), 3'ss of exon 15
gtttgtgtaatttttttaccatttccatttttagccaatatgatgtgctataaattttctttgttgctataatggtatttctttgtttattttccatgttgtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
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---------------gtaa-atgaaaatttatgacaaacattagctattatacttggatttgtccagaataattggtgaggctaacctaccctttaactc--tcatggttcagCATGTATGGCTGCTTGGGCTTTTCCAATTCCAGGTTTTATGCAAAGCCACTTGCTGAGCTTATTACACTGCAA
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 15
gtttgtgtaatttttttaccatttccatttttagccaatatgatgtgctataaattttctttgttgctataatggtatttctttgtttattttccatgttgtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
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--------------gtcagaatttctataacaaagataagt-atgtctgctagtattccaccagtatgagtaataagtttctgactcagtctttaatgct---cgtgctccagcatgtatggttgcttgggcttttccaactccagGTTTTATGCAAAGCCACTTGCTGAGCTGATTACACTCCAA
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA01G39430.1 (Glycine max), 3'ss of exon 16
gtttgtgtaatttttttaccatttccatttttagccaatatgatgtgctataaattttctttgttgctataatggtatttctttgtttattttccatgtt---gtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
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------------------gtgtttttttctttaa--aattttat------tgaatcttccaaaattttatg-tcattcttccttctgtatgtaaaatgttatggtgtgtgatgcagTATGTATGGGTGCCTGGGATTTTCGAATTCAAGATTTTATGCTAAGCCATTAGCTGAGCTTATAACTTCACAA
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT5G67100.1 (Arabidopsis thaliana), 3'ss of exon 15
gtttgtgtaatttttttaccatttccatttttagccaatatgatgtgctataaattttctttgttgctataatggtatttctttgtttattttccatgttgtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
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--------------------gtttgcattttatggttttact-tgtgcggcaataattgccaatcaccgcaatttgatgtttatgtttttttat----tcattctaaacacagTATGTATGGCTGTCTGGGGTTTTCTAATTCAAGATTCTATGCTAAGCCTTTAGCAGAGCTCATAACACTACAG
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: PP1S257_37V6.1 (Physcomitrella patens), 3'ss of exon 18
gtttgtgtaatttttttaccatttccatttttagccaatatgatg--tgcta----taaattttctttgttgctat-aatggtatt---tctttgtttattttccatgttgtctg-tgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
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-----------------------gatactgctagtcgatagggtggctattagtacttgattttcaatgttattattgatgatattcgattttcgttagcatgacat-ttgtgtgattgtgcagTATGTATGGATGCCTGGGCTTTACTAATTCAAGGTTTTACGCCAAGCCTATTGCCGAACTTATTACTGCCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgttgctataatggtatttctttgtttattttccatgttgtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
tatttctttgtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgtaatttttttaccatttccatttttagccaatatgatgtgctataaattttctttgttgctataatggtatttctttgtttattttccatgttgtctgtgattcagTATGTATGGATGCCTGGGGTTTTCCAATTCAAGATTTTATGCAAAGCCACTGGCAGAGCTTATAACACTACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT