Sequence
atgc intronic sequence ATGC exonic sequencegtcagtattggtttccaactttgaatgcactcactaagtggcagaaatttccatcattctgaagttacttcaattgggtgacagGTGAAACCTGGTCTGCCTTACTTGGATGTCATAAGGCTGCTTCGGGATAACTCGTCATTGCCAATTGCTGCATATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g49110.3 (Oryza sativa), 3'ss of exon 10
--gtcagtattggtttcca-actttgaatgcactcactaagtggcagaaatttccatca-ttctgaagttacttcaattgggtgacagGTGAAACCTGGTCTGCCTTACTTGGATGTCATAAGGCTGCTTCGGGATAACTCGTCATTGCCAATTGCTGCATATCAG
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gtaattgtctcgatttgcataacagtgccgtattaccaagatagcttatttacatgttggttctaaaagtacgatccccgtttgacagGTAAAACCTGGATTGCCATACTTGGATGTCATCCGTCTTCTTAGGGACAATTCAGCATTGCCAATCGCTGCATATCAG
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA04G42670.1 (Glycine max), 3'ss of exon 11
--------------------------------------gtcagtattggtttccaactttgaa---tgcactcactaagtggcagaaatttccatcattctgaagttacttcaa--ttgggtgacagGTGAAACCTGGTCTGCCTTACTTGGATGTCATAAGGCTGCTTCGGGATAACTCGTCATTGCCAATTGCTGCATATCAG
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gttggttccctttttatgtgtgtgtgtgtgtgcacgtgcatgatctttgattataatcttgtgcttttttttttctctttatctatactgttttcttttacaaacttgtaaaaaaatggatttgcagGTGAAGCCTGGTCTTCCTTACTTGGATATCATAAGGCTGCTCAGGGATAATTCTCCTTTGCCAATTGCAGCATACCAG
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G12110.1 (Glycine max), 3'ss of exon 10
----------------------------------------------gtcagtattggtttccaactttgaatgcactcactaagtggcagaaatttccatcattctgaagttacttcaattggg--tgacagGTGAAACCTGGTCTGCCTTACTTGGATGTCATAAGGCTGCTTCGGGATAACTCGTCATTGCCAATTGCTGCATATCAG
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gttggttcactttttatgtgtgtgtgtgtgcgcgcatgtgcatgcgcatgatctttgattataa-tttatactttttttttctttatctatactattttcttttacaaacttgtaaaaaactggatttgcagGTGAAGCCTGGTCTTCCTTACTTGGATATCATAAGTCTGCTCAGGGATAATTCTCCTTTGCCAATTGCAGCATACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcactaagtggcagaaatttccatcattctgaagttacttcaattgggtgacagGTGAAACCTGGTCTGCCTTACTTGGATGTCATAAGGCTGCTTCGGGATAACTCGTCATTGCCAATTGCTGCATATCAG
cactcac putative branch site (score: 2)
agaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtattggtttccaactttgaatgcactcactaagtggcagaaatttccatcattctgaagttacttcaattgggtgacagGTGAAACCTGGTCTGCCTTACTTGGATGTCATAAGGCTGCTTCGGGATAACTCGTCATTGCCAATTGCTGCATATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC