Sequence
atgc intronic sequence ATGC exonic sequencegtttgagttcatttaattttaaggcctaactgcactcaccaaattgtcattttaggaatgcacatattaggtgatgagatgaatttgaagccaaagtgtatcttctagctggatggtgctcttgggttatttactgatatgtgagaaatacgtttttttgttcttttttcttgaatgaagGATTTTTGATATATGGTGCTTGCATATTCCAGTCGCTGATCGGACACCATTTACAG
Basic information
species | Glycine max |
transcript | GLYMA16G05580.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0068g01430.t01 (Vitis vinifera), 3'ss of exon 2
gtttgagttcatttaattttaaggcctaactgcactcaccaaattgtcattttaggaatgcacatattaggtgatgagatgaatttgaagccaaagtgtatcttctagctggatggtgctcttgggttatttactg-atatgtgagaaatacgtttttttgttctt-ttttcttgaatgaagGATTTTTGATATATGGTGCTTGCATATTCCAGTCGCTGATCGGACACCATTTACAG
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gtaagcattcactcaaacttaattgcc--ccttattagttaaacc--cgtggagaatatgcttgtacttgtctgtctt-tgaa---aaagctagatgatgagatagaattgtttccta-tcataggccatgtttggtataattattaaattgcctaatttatgattgttttcttgaatggagGCTTTTTGATATATGGTGCTTGCATATTCCTGTTGAGGATCGAACAACGTTTACAG
upper sequence: GLYMA16G05580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0068g01440.t01 (Vitis vinifera), 3'ss of exon 2
gtttgagttcatttaattttaaggcctaactgcactcaccaaattgtcattttaggaatgcacatattaggtgatgagatgaatttgaagccaaagtgtatcttctagctggatggtgctcttgggttatttactgatatgtgagaaatacgtttttttgttcttttttcttgaatgaagGATTTTTGATATATGGTGCTTGCATATTCCAGTCGCTGATCGGACACCATTTACAG
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gtaagcattcaatcaaactaaagttacaaatgga-------gaatatgcttctgtctttgtgtctccaaagaaatttgatgatgatagaattatg----atctgatgccatgccaattacctttgtccatataatcat---taagttgcccagctcactattgtttt--cttgaatgaagGATTTTCGACATATGGTGCTTGCATATCCCTGTTATGGATCGAACACCATTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatttactgatatgtgagaaatacgtttttttgttcttttttcttgaatgaagGATTTTTGATATATGGTGCTTGCATATTCCAGTCGCTGATCGGACACCATTTACAG
tactgat putative branch site (score: 2)
tacgtttttttgttct putative PPT
tttttttgttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgagttcatttaattttaaggcctaactgcactcaccaaattgtcattttaggaatgcacatattaggtgatgagatgaatttgaagccaaagtgtatcttctagctggatggtgctcttgggttatttactgatatgtgagaaatacgtttttttgttcttttttcttgaatgaagGATTTTTGATATATGGTGCTTGCATATTCCAGTCGCTGATCGGACACCATTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT