Sequence
atgc intronic sequence ATGC exonic sequencegtatctctctctctctctctctctctcacacacacacacacacacacaccaacattagttttcaagactaggtttcattatcttctcatttggctgatacctttgctttactgaatctaaatatgaagAACGAACCAAAAATGAGAGAGGCTTTGACATTTGCAAATGCTTGTGGAGCAATGTGTACAACACAGAAGGGAGCAATTCCTGCACTTCCAACCGCTGCAG
Basic information
species | Glycine max |
transcript | GLYMA20G35590.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35590.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G10260.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatctctctctctctctctctctctcacacacacacacacacacacaccaacattagttttcaagactaggtttcattatcttctcatttggctgatacctttgct--ttactgaatctaaatat-gaagAACGAACCAAAAATGAGAGAGGCTTTGACATTTGCAAATGCTTGTGGAGCAATGTGTACAACACAGAAGGGAGCAATTCCTGCACTTCCAACCGCTGCAG
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---------------------------------------gtacgtataaccaaagacgttttcag--------ttcatagataaggcatatgaaattgagttttggtgattgagtaatgtgaatgttgcagGATGAAGGGAAGCTGAAGGAAGCACTTGCCTTTGCAAATGCATGTGGAGCAGTGTGTACTACTCAGAAAGGAGCTATTCCTGCACTTCCCACTCCAGCTG
upper sequence: GLYMA20G35590.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0089g01230.t01 (Vitis vinifera), 3'ss of exon 4
gtatctctctctctctctctctctctcacacacacacacacacacacaccaa-cattagttttcaagactaggtttcattatcttctcatttggctgatacctttgctttactgaatctaaatatgaagAACGAACCAAAAATGAGAGAGGCTTTGACATTTGCAAATGCTTGTGGAGCAATGTGTACAACACAGAAGGGAGCAATTCCTGCACTTCCAACCGCTGCAG
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-------------------------ataaaattatgtccaaaaagtaactgagcgaaaatattgggaaatagaca--gttatattctagttatgatgagggtaatg--taaatgaactgtgaaatgtagGATGAGGGGAAACTGAAGGAGGCACTGAAATATGCTAATGCATGTGGAGCAATTTGCACAACTCAGAAAGGAGCAATACCAGCACTCCCAACCAATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcattatcttctcatttggctgatacctttgctttactgaatctaaatatgaagAACGAACCAAAAATGAGAGAGGCTTTGACATTTGCAAATGCTTGTGGAGCAATGTGTACAACACAGAAGGGAGCAATTCCTGCACTTCCAACCGCTGCAG
atctaaa putative branch site (score: 3)
aatctaaatatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctctctctctctctctctctctcacacacacacacacacacacaccaacattagttttcaagactaggtttcattatcttctcatttggctgatacctttgctttactgaatctaaatatgaagAACGAACCAAAAATGAGAGAGGCTTTGACATTTGCAAATGCTTGTGGAGCAATGTGTACAACACAGAAGGGAGCAATTCCTGCACTTCCAACCGCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG