Sequence
atgc intronic sequence ATGC exonic sequence...tctctctgtagtctaatgcatataatttttctctttttttctcaattaattaattaaccagttcttcctgtggaaatgacaatcatattcttgtctccagATAACAGATGCAGTTGTTGTTGCAAGAATTCTTAATGCTACATTAGTTGTACCTGAGTTGGATCATCAATCTTTTTGGAAAGATGACAG
Basic information
species | Glycine max |
transcript | GLYMA17G15170.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G15170.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g46570.1 (Oryza sativa), 3'ss of exon 3
tctctctgtagtctaatgcatataatttttctctttttttctcaattaattaattaaccagttcttcctgtggaaatgacaatcatattcttgtctccagATAACAGATGCAGTTGTTGTTGCAAGAATTCTTAATGCTACATTAGTTGTACCTGAGTTGGATCATCAATCTTTTTGGAAAGATGACAG
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---------------gtaca-actgtatttcaactttttattgcgttgctttgt--atta-tccattgtattaccattacgatc----ttcagtttccagATAACAGATGCTGTTGTTGTCGCCCGAATATTGAATGCCACACTTGTTGTACCTGAGTTAGATCACCACTCATTCTGGAAGGATGATAG
upper sequence: GLYMA17G15170.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G16650.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------tctctctgtagtctaatgcatataatttttctctttttttctcaattaattaattaaccagttcttcctgtggaaatgacaatcatattcttgtctccagATAACAGATGCAGTTGTTGTTGCAAGAATTCTTAATGCTACATTAGTTGTACCTGAGTTGGATCATCAATCTTTTTGGAAAGATGACAG
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gtaagtgaaattatgtgtcaagaataaacgtgttaggatattacaattatattgcttatttgcccaactaaaaaagattatgctgcttattgtcc-ttagggagttag---gacctgcattttgaaa--ataatgttctctttgtgtgcagATAACTGATGCAGTGGTTGTTGCACGGATTCTTAATGCTACTTTAGTTGTACCCGAGTTGGATCACCATTCTTACTGGAAAGATGACAG
upper sequence: GLYMA17G15170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------tctctctgtagtctaatgcatataatttttctctttttttctcaattaattaattaaccagttcttcc-tgtggaaatgacaatcatattcttgtctccagATAACAGATGCAGTTGTTGTTGCAAGAATTCTTAATGCTACATTAGTTGTACCTGAGTTGGATCATCAATCTTTTTGGAAAGATGACAG
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gtaagtataaagattcttctgtagctgctacatgttcattaaaacatatatagtggaaggatatgctgttgccgt-gtcaacttcataaacatattataaacttgtttcagttatttacttgtttatcctttttgcatggaatttacaatccatttcctgcactcagATAACCGATGCTGTAGTAGTTGCTCGGATTCTTAATGCTACATTAGTTGTACCAGAGTTGGATCATCATTCCTTCTGGAAAGATGATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaattaattaaccagttcttcctgtggaaatgacaatcatattcttgtctccagATAACAGATGCAGTTGTTGTTGCAAGAATTCTTAATGCTACATTAGTTGTACCTGAGTTGGATCATCAATCTTTTTGGAAAGATGACAG
aattaac putative branch site (score: 2)
ttcttgtctcc putative PPT
aatcatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctctctgtagtctaatgcatataatttttctctttttttctcaattaattaattaaccagttcttcctgtggaaatgacaatcatattcttgtctccagATAACAGATGCAGTTGTTGTTGCAAGAATTCTTAATGCTACATTAGTTGTACCTGAGTTGGATCATCAATCTTTTTGGAAAGATGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- -ctctgta
- - - - - - - - tgcatat