Sequence
atgc intronic sequence ATGC exonic sequencegtatttttaaatcacttctcatttattttcaacttgcatgttaaataatgtctcttgaattttctccccgatttattattgcaatgtttactcaaattacgtgcagaatgcatatttaaacttttcaattgtatcaataatttacaatctgcacttgttgtccagGTACTGGAGGAAAATTTGGACTGGGAAGATGTGCAATGGTCGCAAGCTGGTGTTTGGATTGCTGGAAAGGAATATACCCTGGCACGGGTGCATTTCTTGT
Basic information
species | Glycine max |
transcript | GLYMA20G35720.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os07g29450.1 (Oryza sativa), 3'ss of exon 11
gtatttttaaatcacttctcatttattttcaacttgcatgttaaataatgtctcttgaattttctccccgatttattattgcaatgtttactcaaattacgtgcagaatgcatatttaaacttttcaattgtatcaataatttacaatctgcacttgttgtccagGTACTGGAGGAAAATTTGGACTGGGAAGATGTGCAATGGTCGCAAGCTGGTGTTTGGATTGCTGGAAAGGAATATACCCTGGCACGGGTGCATTTCTTGT
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-------------------------------------------------------gtaacgtcctgctt--tctaacattaaaatggtggat-aattcgcatacagaaaccaca-----attctcacacggtttt-----cttgttacctcgacgcaacg--cagGTGCTGCAGGATAATTTGGAATGGGAGGATGTGCAGTGGTCGCAGACTGGTGTTTGGGTTGCTGGAAAGGAATATCCTCTCGCCCGAGTGCATTTCCTAT
upper sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G08450.2 (Arabidopsis thaliana), 3'ss of exon 11
gtatttttaaatcacttctcatttattttcaacttgcatgttaaataatgtctcttgaattttctccccgatttattattgcaatgtttactcaaattacgtgcagaatgcatatttaaacttttcaattgtatcaataatttacaatctgcacttgttgtccagGTACTGGAGGAAAATTTGGACTGGGAAGATGTGCAATGGTCGCAAGCTGGTGTTTGGATTGCTGGAAAGGAATATACCCTGGCACGGGTGCATTTCTTGT
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-----------------------------------------------------gttaacatttttctccaatttgactcttct-tgttt-tgaaaattctttataaaacaaatgctgatgat--------gtgttgtggattttgga---------atggagtagGTGTTGGAGGAGAATCTTGATTGGGAAGATGTACAGTGGTCACAAACTGGTGTTTGGATTGCTGGAAAAGAGTACACTCTTGCTCGTGTTCATTTTCTCT
upper sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 10
gtatttttaaatcacttctcatttattttcaacttgcatgttaaataatgtctcttgaattttctccccgatttattattgcaatgtttactcaaattacgtgcagaatgcatatttaaacttttcaattgtatcaataatttacaatctgcacttgttgtccagGTACTGGAGGAAAATTTGGACTGGGAAGATGTGCAATGGTCGCAAGCTGGTGTTTGGATTGCTGGAAAGGAATATACCCTGGCACGGGTGCATTTCTTGT
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---------------------------------------------------------taccaaatatccaaatggtgat-gagctattcacaaaacttaaatat---gtgcctggt-aatccattc---tgaatcagaaccttggatctttttttggttgaacagGTCTTGGAGGAGAATCTCGACTGGGAGGATGTGCAGTGGTCCCAAACTGGTGTTTGTATAGCTGGAAAGGAATATGCGCTTGCTCGAGTTCATTTCCTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catatttaaacttttcaattgtatcaataatttacaatctgcacttgttgtccagGTACTGGAGGAAAATTTGGACTGGGAAGATGTGCAATGGTCGCAAGCTGGTGTTTGGATTGCTGGAAAGGAATATACCCTGGCACGGGTGCATTTCTTGT
ttaaacttttcaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttaaatcacttctcatttattttcaacttgcatgttaaataatgtctcttgaattttctccccgatttattattgcaatgtttactcaaattacgtgcagaatgcatatttaaacttttcaattgtatcaataatttacaatctgcacttgttgtccagGTACTGGAGGAAAATTTGGACTGGGAAGATGTGCAATGGTCGCAAGCTGGTGTTTGGATTGCTGGAAAGGAATATACCCTGGCACGGGTGCATTTCTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA