Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtccataaatggtagtattagtaatgactaactgttcagacactaattgtataactgcatctatttttcagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g31950.1 (Oryza sativa), 3'ss of exon 9
---------------gtgtgtccataaatggtagtattagtaatgactaactgttcagacactaattgtataactgcatctattttt-cagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
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gtaacatccttttttccttttcttccaaagatggcaatcaaacagagaggtccatttatctgtgaatgctcattttaagctatttgtacagGAAGAAGTTGTTATGAAGAGGTGTTGGCTTGCTCGTTATTGGGGCTTGGCTGTTCAATATG
upper sequence: Vv17s0000g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G17390.1 (Glycine max), 3'ss of exon 9
--gtgtgtccataaatggtagtattagtaatgactaactgttcagacactaattgta---taactgc--atctatttttcagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
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gtttgtgtttaccattgaaataatatttaacaagttttcattttcccatttgtcttaattcatcttcttatctgtcttttagGAGGAAGTTGTCCTGAAGAGATGTTGGCTTGCCCGCTACTGGGGTCTTGCTGTAAAACATG
upper sequence: Vv17s0000g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G25070.2 (Arabidopsis thaliana), 3'ss of exon 8
------------------------gtgtgtccataaatggtagtattagtaatgactaactgttcagacactaattgtataactgcatctatttttcagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
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gtttgcttacaatctaaactagaattttgtgcattgacggt----ttaactccaccttctttgtttcat-ttaactatatgattg-accaaccttgcagGAGGAAGTTGTTCTAAAGAGATGCTGGCTTGCTCGCTACTGGGAATTAGCTGTTCAACATG
upper sequence: Vv17s0000g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G48860.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgtgtccataaatggtagtattagtaatg----actaactg--------ttcagacactaattgtataactgcatctatttttcagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
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gtttgtcaaaaaatcttgggtctcgtaatgtaccaataattgataaggttctgaggttctgactttatgaatgattgaattatctagGAAGAAGTAGTTCTGAAGAGATGCTGGCTTGCTCGGTATTGGGGCTTGGCTGTGCAACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attagtaatgactaactgttcagacactaattgtataactgcatctatttttcagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
tctatttttc CT-rich tract
taattgtataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtccataaatggtagtattagtaatgactaactgttcagacactaattgtataactgcatctatttttcagGAAGAAGTTGTTCTGAAGAGATGTTGGCTTGCTCGATACTGGGGTTTAGCCGTACATCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG