Sequence
atgc intronic sequence ATGC exonic sequence...tgatgtgtttttattttcatatttgccactgatatttgctatttttttagaattacttgtttatatgtgtgatatgtttgatgtcgaccttattttgcagCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 15
-------------------------------------------tgatgtgtttttattttcatatttgcca---ctgatatttgctatt--tttttagaa-----ttacttgtttatatgtgtgatat-gtttgatgtcgaccttattttg--cagCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
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gttaatatatctcgtacactgatgtactggtgttccccatatttgatttttctgaataataacttatgataatcttgtcatttgctgccgattttcaaatgtcctttatttagttaagaatttggtgtcatttactgttttttttttcatgtccagCTTGGGTACACCAAGAAACAAGAGGAGAGACATTTTCGAGGTGTTATTGTCCTGGAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 15
-tgatgtgtttttattttcatatttgccactgatatttgctatttttttagaattacttgtttatatgtgtgatatgtttg-atgtcgaccttattttg-cagCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
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actatttgtgcgtcatgttatgattgtttataatatcag--aatatgtcaatgctttctgaacatgtgc-tgatttaactatacttatacttcatattgtcagCTTGGATACACCAAAAAACAAGAAGAGAGACATTTCCGAGGAGTAATTACGTTAGAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 15
-----tgatgtgtttttattttcatatttgccactgatatttgctatttttttagaattacttgtttatatgtgtgatatgtttgatgtcgaccttattttgc-agCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
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gtcattaacacactgattttttattattttttttggggggggggggg------gggggtaatgctttcggaacatgtgctgatttaactatacttcatattgccagCTTGGATACACAAAAAAACAAGAAGAGAGACATTTCCGAGGAGTGATTACATTAGAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 15
--------------------------------tgatgtgtttttattttcatatttgccactgatatttgctatttttttagaattacttgt-ttatatgtgtgatatgt-ttgatgtcgaccttattttgcagCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
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gtaagtgttgatccacatatttcgaaaaagaaagctgtaatcgtaatgctagaagtat-actatccctcacaatgttactatcttttttattgttgttgaagtgatctacctttgcatttacctttctt--cagCTTGGTTATACAAAAAAACAAGAAGAAAGAAACTTCCGCGGCACTGTAACTTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagaattacttgtttatatgtgtgatatgtttgatgtcgaccttattttgcagCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
gtttgat putative branch site (score: 5)
ccttatttt putative PPT
aattacttgtttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatgtgtttttattttcatatttgccactgatatttgctatttttttagaattacttgtttatatgtgtgatatgtttgatgtcgaccttattttgcagCTTGGATATACCAAAAAACAAGAAGAAAGACATTTTCGTGGTGTTATTAATTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
tgatgtg
- - - - - - - - - - - -tgccact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtc