Sequence
atgc intronic sequence ATGC exonic sequencegtaatcctcaccttaggaggctgttaatcccatttgaaaccatttttcatcttttttatatgttgatcttctattttgaatatgttaacctacattacacaaacacataagctaatggctgttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTGGCAAGAAGATCAAG
Basic information
species | Glycine max |
transcript | GLYMA01G14800.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 7
-------gtaatcctcaccttaggaggctgttaatcccatttgaaaccatttttcatcttttttatatgttgatcttctattttgaatatgttaacctacattacacaaacacataagctaatggctgttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTGGCAAGAAGATCAAG
||| ||| ||| || | || | || | ||| | |||| | | || | || ||||| || || | | | | ||| ||| | | |||||||| |||||| ||||||| ||||||||| ||| ||||||||||| || ||||| |||||||| |||| || |||
gtaaatgttaaatctc-cctcttgattatattgctgtgtttactgaatattaaaagtattttgtgcccttctgtcatgcatcatgaattggtgaa--tgctgaatgctaactcatg------ttgttgtttttta--tgaagAGTTTACGAAGGTGTGATTAAGAAAGGTGATTTTATCATAAATGTCAACACTGGGAAGAGAATTAAG
upper sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatcctcaccttaggaggctgttaatcccatttgaaaccatttttcatcttttttatatgttgatcttctattttgaatatgttaacctacattacacaaacacataagcta-atggctgttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTGGCAAGAAGATCAAG
|||| | | || || || ||| | | || || ||| ||| | | | | | || ||| | | | | | ||| | | | || || || |||||| ||||||| ||||||||| ||| ||||||||||| || ||||| |||||||| |||| || |||
gtaaatgttgaatct---ccctcttgattatattgctgtgtttactaaatattaaaagtattttgtgcctttctgtcatatg-actaaattggtgaatgctgaatcctaattcatgttgttggttgtta--tgaagAGTTTACGAAGGTGTGATTAAGAAAGGTGATTTTATCATAAATGTCAACACTGGGAAGAGAATTAAG
upper sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 7
gta-atcctcaccttaggaggctgttaatcccatttgaaaccatttttca---tcttttttatatgttgatcttctattttgaatatgt-taacctacattacacaaacacataagctaatggctgttttt-tggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTGGCAAGAAGATCAAG
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gtacaatttcaattttgtttggttttatttttattttaatgtgtgtacaaggctcttatttatgcattaatggagtgttatatgttgatctaaaccatatattactga-actcgtcctaacttttatttttgttaatgaagAATCTACGAGGGTGTCATTCGGAAGGGTGATTTTATAATCAATGTAAACACAGGCAAAAAGATAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgttaacctacattacacaaacacataagctaatggctgttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTGGCAAGAAGATCAAG
ctgtttttt CT-rich tract
tgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcctcaccttaggaggctgttaatcccatttgaaaccatttttcatcttttttatatgttgatcttctattttgaatatgttaacctacattacacaaacacataagctaatggctgttttttggctgaagAATTTACGAGGGTGTGATTCGGAAGGGTGATTTTATTATTAATGTAAACACTGGCAAGAAGATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA