Sequence
atgc intronic sequence ATGC exonic sequencegtaatttagtggggcttaaatgcattatctcagttgtgacatgcaaaagaaattctttttctgcatatgttgtcctacgagatacaaatctgacagctctctctctctctctccccctccctcttcccccccactttccagtttgtgttttagttgtatatcttgaccttattatttttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g06520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G150796_T02 (Zea mays), 3'ss of exon 6
gtaatttagtggggcttaaatgcattatctcagttgtgacatgcaaaagaaattctttttctgcatatgttgtcctacgagatacaaatctgacagctctctctctctctctccccctccctcttcccccccactttccagtttgtgttttagttgtatatcttgaccttattatttttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
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---------------------------------------------------------------------------------------------------------gtattaagatcttttatcaattatcatagtgcacaaaatatcccaaacacgta-attctcaccacattttcgtt-ctttaatct----agACAGATCTTGTTATATATGAAATGAATGTCCGTGCCTTCACTGCCGACGAGTCAAGCAGGCTTGCTCCAGCTATTCGTGGAAGTTACCTTGGTGTCATTG
upper sequence: Vv18s0001g06520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G385578_T01 (Zea mays), 3'ss of exon 4
gtaatttagtggggcttaaatgcattatctcagttgtgacatgcaaaagaaattctttttctgcatatgttgtcctacgagatacaaatctgacagctctctctctctctctccccctccctcttcccccccactttccagtttgtgttttagttgtatatcttgaccttattatttttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
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------------------------------------------------------------------------------------------------------------------gtattaagattatttatcataatgcactaaatatctcaaacgcgtaa-ttgtcaccac-atttttgttctttaatct--agACAGATCTTGTTATATATGAAATGAATGTCCGTGCCTTCACTGCGGATGAGTCAAGCAAGCTTGGTCCAGCCATTCGTGGAAGTTACCTTGGTGTCATTG
upper sequence: Vv18s0001g06520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 3
gtaatttagtggggcttaaatgcattatctcagttgtgacatgcaaaagaaattctttttctgcatatgttgtcctacgagatacaaatctgacagctctctctctctctctccccctccctcttcccccccactttccagtttgtgttttagttgtatatcttgacctt-attatttttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
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------------------------------------------------------------------------------------------------cctgatgtctagtcttcatttgactgagaatatgtttctggctgaatgaagtctaatgtatgctcttccattttcatcatttttgtggctgctaatacagAAAGATCTTGTTATATATGAGATGAATGTCCGTGCATTTACAAGTGATGAATCTAGTGGTTTGGATAGCAACATTCGTGGCAGCTACCTCGGTATGATTG
upper sequence: Vv18s0001g06520.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G09020.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatttagtggggcttaaatgcattatctcagttgtgacatgcaaaagaaattctttttctgcatatgttgtcctacgagatacaaatctgacagctctctctctctctctccccctccctcttcccccccactttccagtttgtgttttagttgtatatcttgaccttattattt-ttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
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---------------------------------------------gtaaaaatt--------gcatttgtt-tccttc-agctagttgttgcacgattccgactttgaatatggaatttgtattcctgcagca-tttatggtttctcccttattt---tgtttcagttttgtaatcagctgctactgt-tttgcagAAGGATCTTGTTATTTATGAAATGAATGTTCGTGCTTTTACTGCTGATGAATCCAGTGGGATGGACCCAGCTATAGGAGGCAGTTACCTCGGTTTCATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgtgttttagttgtatatcttgaccttattatttttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
tcttgac putative branch site (score: 3)
ttgtcttt putative PPT
ttattatttttgctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttagtggggcttaaatgcattatctcagttgtgacatgcaaaagaaattctttttctgcatatgttgtcctacgagatacaaatctgacagctctctctctctctctccccctccctcttcccccccactttccagtttgtgttttagttgtatatcttgaccttattatttttgctattgtctttgcagAAAGATCTTGTTATATATGAGATGAATGTTCGTGCATTTACAGCTGATAAATCTAGTGGATTGGATCCAAATGTCCGTGGCAGCTACCTTGGTGTGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT