Sequence
atgc intronic sequence ATGC exonic sequencegtccctttatttcactttttatatctaatccaatataatctaatgcaaccctttttacttattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
Basic information
species | Glycine max |
transcript | GLYMA10G38270.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38270.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os06g03800.1 (Oryza sativa), 3'ss of exon 1
----------gtccctttatttcactttttatatctaatccaatataatctaa--tgcaaccctttttact--tattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
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ggagaaaaaaattcagctgctgttcaatctctgaacaatc-gatatgttctgaattcttaccagttttgacagtgttcaactaaccaaactgtgtgctc----agATTGCTGCATTGCTGCTGGAGAATGGAGCAGATGTGAATGCGAGGAACATCTATGGACAG
upper sequence: GLYMA10G38270.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G07270.1 (Arabidopsis thaliana), 3'ss of exon 1
gtccctttatttcactttttatatctaatccaatataatctaatgcaaccctttttacttattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
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gtttctt--tttcactcttcattgctcata-attttactgttctcgaatttttaatataaagttttctcttttaccgatatgtgatgttagATCGTCGGATTGTTGCTCGAGAACGGAGCTGATGTGAATTCCAGAAATTATTGCGGCCAG
upper sequence: GLYMA10G38270.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
------------------gtccctttat-ttcactt-tttatatctaatccaatataatctaatgcaaccctt---tttacttattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
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gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatctaatgcaaccctttttacttattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
atctaat putative branch site (score: 3)
ttttctgtt putative PPT
tttttacttattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccctttatttcactttttatatctaatccaatataatctaatgcaaccctttttacttattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT