Sequence
atgc intronic sequence ATGC exonic sequence...tttagtttattattgagtacaaattttttatatataacatgttgttcattcatggtgtgatggactaactcttctctctccctctactgttctactttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 2
----tttagtttattattgagtacaaattttttatatataacatgttgttcattcatggtgtgatggactaactcttctctctccctctactgttctactttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
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atcagtagggttattcataagagaga--tcctaacctagcctagattaaagcatcttattttattaggatggccctcattggttgca-tac-atctcatttcagGGTTTCACTTATCCTGTTCGGAGTCGATTTCTAGAAGATATTCTCGAAATTACTGGGCACAGATTAACTCCTTACAATCAAATTGATGACTATGGTCAAG
upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
tttagtttattattgagtacaaattttttatatataacatgttgttcattcatggtgtgatggactaactcttctctctcc----ctctactgttctactttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
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--tgcaataaaattt-gtttgaatgtcttgtgctttgc-tgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 8
--tttagtttattattgagtacaaattt-tttatatataacatgttgttcattcatggtgtgatggactaactcttctctctccctctactgttctac------tttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
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tgttgctctggcaaatcgatatgcatttgcttacagataatatga---------aagatatgataaacttattttattttaattttctggggacctgtgcactttctagGGTTTTACATTTCCAGTTCGAGCACATTTTCTTGAGGACATTCTGGAAAGGACTGGATATCGATTGACACCGTATAATCAAATTGATGACTATGGTCAAG
upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 8
--tttagtttattattgagtacaaattt-tttatatataacatgttgttcattcatggtgtgatggactaactcttctctctccctctactgttctac------tttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
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tgttgctttgacaaatcgatatacatttgcttacaggtgatatga---------aagatatgataaacttattttcttttaattttttggggacctgtgcactttctagGGTTTTACATTTCCAGTTCGAGCACATTTTCTTGAGGATATTCTGGAAAGGACTGGATATCGGTTGACACCTTCTAATCAAATTGATGACTATGGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattcatggtgtgatggactaactcttctctctccctctactgttctactttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
gactaac putative branch site (score: 1)
ctaactcttctctctc CT-rich tract
tacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagtttattattgagtacaaattttttatatataacatgttgttcattcatggtgtgatggactaactcttctctctccctctactgttctactttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAG
- - - - - - - - - acaaatt
- - - - - - - - - - - - - - - - - - acatgtt
- - - - - - - - - - - - - - - - - - - - - - - - ttcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgatgg