Sequence
atgc intronic sequence ATGC exonic sequencegtaagttataatttcatactttcatgccaatgattttcttttccctttcatacagtgcatacttttattgccattttactctttttaattaggattcagtcccattcttttattggatttcaatattcatatctagGTACTTCCAACAATTGTAAAACTCTTTGCCTCCAATGATCGAGCTATACGAGTTGCCCTTCTTCAACATATTGATCAATATGGAGAGTCTTTATCAGCGC
Basic information
species | Glycine max |
transcript | GLYMA18G47590.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47590.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaagttataatttcatactttcatgccaatgattttcttttccctttcatacagtgcatac-ttttattgccattt-tactctttttaattaggattcagtcccattcttttattggatttcaatattcatatctagGTACTTCCAACAATTGTAAAACTCTTTGCCTCCAATGATCGAGCTATACGAGTTGCCCTTCTTCAACATATTGATCAATATGGAGAGTCTTTATCAGCGC
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-------------------gtttgt-tcagccatgctaaatttctgtttaaacgctctatacactccaatgctgtatgtatacttttcagttattgtctaaaggtactcccttttatgattt-------------tagGTACTACCAACAATTGTCAAGCTTTTTGCTTCCAATGATCGAGCTATCAGAGTTTCTCTTTTGCAACATGTTGATCAATTTGGAGAATCAATGTCTGGGC
upper sequence: GLYMA18G47590.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 10
------------------------gtaag-ttataat-ttcatactttca--tgccaatgattttcttttccctttcatacagtgcatacttttattgccattttactctttttaattaggattcagtcccattcttttattggatttcaatattcatatctagGTACTTCCAACAATTGTAAAACTCTTTGCCTCCAATGATCGAGCTATACGAGTTGCCCTTCTTCAACATATTGATCAATATGGAGAGTCTTTATCAGCGC
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gtcatactcttttgagtacctcatgtaaacttattatgttggcatttttaattaacaataattttatctttctttatgt---gtttagatgcttatctcatttctgtttttctaaaatttgatgttgtcaaactcctc------------atttttatatacagGTACTTCCGACAATTGTGAAACTTTTCGCCTCAAATGACCGAGCCATTCGAGTTGGTCTCCTGCAGCATATTGATCAGTATGGGGAGTCATTATCTGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttaattaggattcagtcccattcttttattggatttcaatattcatatctagGTACTTCCAACAATTGTAAAACTCTTTGCCTCCAATGATCGAGCTATACGAGTTGCCCTTCTTCAACATATTGATCAATATGGAGAGTCTTTATCAGCGC
ttttaat putative branch site (score: 3)
atttcaatattcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttataatttcatactttcatgccaatgattttcttttccctttcatacagtgcatacttttattgccattttactctttttaattaggattcagtcccattcttttattggatttcaatattcatatctagGTACTTCCAACAATTGTAAAACTCTTTGCCTCCAATGATCGAGCTATACGAGTTGCCCTTCTTCAACATATTGATCAATATGGAGAGTCTTTATCAGCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA