Sequence
atgc intronic sequence ATGC exonic sequencegtacccctcaccataggaggctgttaatcccatttgaaaccgtttttcatcatttatatatattgatcttttgttttgaatgttagcctacattacacaaatacataagctaatggtttttttttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTAGCAAGAAGATCAAG
Basic information
species | Glycine max |
transcript | GLYMA11G16460.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 7
gtacccctcaccataggaggctgttaatcccatttgaaaccgtttttcatcattta-tatatattgatcttttgttttgaatgttagcc-tacattacaca------aatacataa-gctaatggtttttttttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTAGCAAGAAGATCAAG
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---------------gtaaatgttaaatctccctcttgattatattgctgtgtttactgaatattaaaagtattttgtgcccttctgtcatgcatcatgaattggtgaatgctgaatgctaactcatgttgttgttttttatgaagAGTTTACGAAGGTGTGATTAAGAAAGGTGATTTTATCATAAATGTCAACACTGGGAAGAGAATTAAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 7
gtacccctcaccataggaggctgttaatcccatttgaaaccgtttttcatcattta-tatatattga---tcttttgt----tttgaatgttagcctacattacacaaatacataagc-taatggtttttttttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTAGCAAGAAGATCAAG
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---------------gtaaatgttgaatctccctcttgattatattgctgtgtttactaaatattaaaagtattttgtgcctttctgtcatatgactaaattg-gtgaatgctgaatcctaattcatgttgttggttgttatgaagAGTTTACGAAGGTGTGATTAAGAAAGGTGATTTTATCATAAATGTCAACACTGGGAAGAGAATTAAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 7
gtacc-cctcaccataggaggctgttaatcccatttgaaaccgtttttca---tcatttatatatattgatcttttgttttgaatgttagcctacattacacaaatacataagctaa--tggtttttttttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTAGCAAGAAGATCAAG
|||| ||| | | | | ||| | |||| || || | | || | | ||| ||| || |||| | ||||| ||| | | | | ||| || | |||| ||||| | |||||||| ||||||||||| |||||||||||||||||||| || ||||||||||| |||| ||||| |||
gtacaatttcaattttgtttggttttatttttattttaatgtgtgtacaaggctcttatttatgcattaatggagtgttat--atgttgatctaaaccatatat-tactgaactcgtcctaacttttatttttgttaatgaagAATCTACGAGGGTGTCATTCGGAAGGGTGATTTTATAATCAATGTAAACACAGGCAAAAAGATAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagcctacattacacaaatacataagctaatggtttttttttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTAGCAAGAAGATCAAG
agctaat putative branch site (score: 3)
tttttttttttttggc putative PPT
taatggtttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacccctcaccataggaggctgttaatcccatttgaaaccgtttttcatcatttatatatattgatcttttgttttgaatgttagcctacattacacaaatacataagctaatggtttttttttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTAGCAAGAAGATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA