Sequence
atgc intronic sequence ATGC exonic sequence...actcttttcttggttatatgaagtcaatttcactattttctgttcatatatattattgtatcatctctgatgacttgtgcttatatgcaatggaatccagTTCTTCGTGTCTTGAATGAACATCAACAGATTCATTCTTTTTCTGCATTCAACAGTCTCTTCAACAATACAGGGTTATTTGGCATCTATGCAAGCACG
Basic information
species | Glycine max |
transcript | GLYMA15G02390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02390.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0003g03230.t01 (Vitis vinifera), 3'ss of exon 6
-----------------------------------------------------------------------------actct----tttcttggttatatgaagtcaatttcactattttctgttca-tatatattattgtatcatctctga---tgacttgtgc-ttatatgcaatg-gaatccagTTCTTCGTGTCTTGAATGAACATCAACAGATTCATTCTTTTTCTGCATTCAACAGTCTCTTCAACAATACAGGGTTATTTGGCATCTATGCAAGCACG
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gtaagttttacatatggctactggttttcttgtagcttaccttgatcatttgggttattgttatttattattgttggactttatagctgcttggatttcctgtgttg-ttgcattaatgttgattgagtatatatttctaaatttctgctaagtttaactcgcttgtttcacccattttgaacacagATCTTCGTGTCTTGAATGAGTATCAACAACTTCAATCTTTCTCTGCATTCAACAATATCTTCAACAATACTAGAATTTTTGGCATTTATGCTAGCACT
upper sequence: GLYMA15G02390.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g03200.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------------------------------------------actcttttcttggttatatgaagtca--atttcactattttctgttca-tatatattattgtatcatctctga---tgacttgtgcttatatgcaatg--gaatccagTTCTTCGTGTCTTGAATGAACATCAACAGATTCATTCTTTTTCTGCATTCAACAGTCTCTTCAACAATACAGGGTTATTTGGCATCTATGCAAGCACG
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gtaagttttacatatggctactggttttcttgtagcttaccttgatcatttgggttatggttatttattattgttggactttatagctgcttggattcctgtgttgttgcattaatgttgactgagtatatatttctaaatttctgctaagtttaactcgtttgtttaacccattttgaacacagATCTTCGTGTCTTGAATGAGTATCAACAGCTTCAATCTTTCTCTGCATTCAACAATATCTTCAACAATACTGGAATTTTTGGCATTTATGCTAGCACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatattattgtatcatctctgatgacttgtgcttatatgcaatggaatccagTTCTTCGTGTCTTGAATGAACATCAACAGATTCATTCTTTTTCTGCATTCAACAGTCTCTTCAACAATACAGGGTTATTTGGCATCTATGCAAGCACG
ctctgat putative branch site (score: 4)
tattattgtatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actcttttcttggttatatgaagtcaatttcactattttctgttcatatatattattgtatcatctctgatgacttgtgcttatatgcaatggaatccagTTCTTCGTGTCTTGAATGAACATCAACAGATTCATTCTTTTTCTGCATTCAACAGTCTCTTCAACAATACAGGGTTATTTGGCATCTATGCAAGCACG
- - - - - - - - tatgaag
- - - - - - - - - - - - - - - - - - -ttctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgcaa