Sequence
atgc intronic sequence ATGC exonic sequencegtaagctagttactcctatctagtttggcactaaaataatcaccaaaacataaaactcttatatgactggaaaaagttgtaactttattgtttatattcatgattggtattacagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
Basic information
species | Glycine max |
transcript | GLYMA13G18630.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G18630.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 4
gtaagctagttactcctatctagtttggcactaaaataatcaccaaaacataaaactcttatatgactggaaaaagttgtaactttattgtttatattcatgattggtatta-----cagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
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gtaagtttgtt-ctttagaatctttcaccaataatttcttatcacaaacatgatacatatttaaatgttgggctttttcaaacttcattattgtgattcatcttttctactatctggcagATGCTAAAGTTCAAAGATAACAATATTAACAATGAGGGAATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA13G18630.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G067764_T02 (Zea mays), 3'ss of exon 4
gtaagctagttactcctatctagtttggcactaaaataatcaccaaaacataaaactcttatatgactggaaaaagttgtaactttattgtttatattcatgattggtatt--acagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
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-----------------------------------gtaagccttttgtcttgattcttttgtaagtt------gccctgaaattctttaatcta-acccatctctactgtttggcagATGCTAAATTTCAAGGATAACAATATAAACAATGATGGGATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA13G18630.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagctagttactcctatctagtttggcactaaaataatcaccaaaacataaaactcttatatgactggaaaaagttgtaactttattgtttatattcatgattggtattacagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
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------------------------------gtaaggcagttactagatcttatgtggaatagaggtgtgtgtccatcttca--tttactgatactattcatg---gaaattgcagATGCTTAATTTTCCGAACAATGTTTTGAACAATGGGGGAAGGCTGAGGACATTTCTTGATGTTGGCTGTGGTGTTGCTAGCTTTGGAGGTTATCTTCTTG
upper sequence: GLYMA13G18630.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G14360.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagctagttactcctatctagtttggcactaaaataatcaccaaaacataaaactcttatatgac--tggaaaaagttgtaac-tttattgtttatattcatgattggtattacagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
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------------------------------gtaaggaagttac----acttggtgtttgtacaagagaacgtatattattctttcatttgctaattgtattcttgga-aatttttcagATGCTTAACTATCCTAACAACGTGCTGAACAACGGTGGAAGGCTAAGGACGGTTTTCGATGTTGGTTGTGGTGTTGCGAGTTTTGGAGGTTATCTTTTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgactggaaaaagttgtaactttattgtttatattcatgattggtattacagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
ttgtaac putative branch site (score: 2)
aaaaagttgtaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctagttactcctatctagtttggcactaaaataatcaccaaaacataaaactcttatatgactggaaaaagttgtaactttattgtttatattcatgattggtattacagATGCTCAACTTTCCAAACAATGTCATAAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT