Sequence
atgc intronic sequence ATGC exonic sequence...atattgcctcatgatctttataacattcactttttaatatattaaagagttgtaacagcgagttctgagaatcattttacttgttttcttggaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAGAAGATTGACAATGGAACTGGTGTTGTGACAAG
Basic information
species | Glycine max |
transcript | GLYMA20G36530.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36530.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 3'ss of exon 3
atattgcctcatgatctttataacattcactttttaatatattaaagagttgtaacagcgagttctgagaatcattttacttgttttcttggaatg-tcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAGAAGATTGA---CAATGGAACTGGTGTTGTGACAAG
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----------gttagaagtcagtcatttgttttctactat-ttata---ttttaactgtttatt-----aacttttttctccattttcaatcaatactcagAATTCAAGTTAGTCACCAGAGAAATCTGCAAGCTCCCATCTTTCTTCTCCACTTCCCTTTTCCGGAAGATCGATCTCAACAATACAGGTTTTGTTACTAG
upper sequence: GLYMA20G36530.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 3'ss of exon 3
atattgcctcatgatctttataacattcactttttaatatattaaagagttgtaacagcgagttctgagaatcattttacttgttttcttggaatg-tcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAGAAGATTGA---CAATGGAACTGGTGTTGTGACAAG
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------------------gttagaagtcagtcatttgt-tttctactaattatatttgaactgtttattaacttttttctccattttcaatcaatactcagAATTCAAGTTAGTCACCAGAGAAATCTGCAAGCTCCCATCTTTCTTCTCCACTTCCCTTTTCCGGAAGATCGATCTCAACAATACAGGTTTTGTTACTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagttgtaacagcgagttctgagaatcattttacttgttttcttggaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAGAAGATTGACAATGGAACTGGTGTTGTGACAAG
ttgtaac putative branch site (score: 2)
ttttcttg putative PPT
attttacttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atattgcctcatgatctttataacattcactttttaatatattaaagagttgtaacagcgagttctgagaatcattttacttgttttcttggaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAGAAGATTGACAATGGAACTGGTGTTGTGACAAG
- - tgcctca
- - - - - - - - - - - -cattcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgag