Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcttttgccaataatgattaactgcatgtattatatagatacattatttttacttatataaaatgtaagttctaatagttttgttgttggttatgtgaacttggcttagGTATTATGCATGGGAGAGTAGTTTCCAGTCTAAAGTACAGATTGTCCGAGATGATGAATTATCTTGGTTTCGGAAAGCATCATTACTAGGAGCG
Basic information
species | Glycine max |
transcript | GLYMA15G09900.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G30400.2 (Arabidopsis thaliana), 3'ss of exon 13
gtatgtcttttgccaataatgattaactgcatgtattatatagatacattatttttacttata-taaaatgtaagttctaatagttttgttgttggttatgtgaacttggcttagGTATTATGCATGGGAGAGTAGTTTCCAGTCTAAAGTACAGATTGTCCGAGATGATGAATTATCTTGGTTTCGGAAAGCATCATTACTAGGAGCG
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----------------gtacgatactttggaagactgaaacctaatatttattttcttgcatagttggaagtttgtggcagtgtttaactatctcactaaaccaaaatactgtagGTGTTACGCTTGGGAAAACAGTTTTCAGTCCAAGGTTCAAACTGTACGTGATGATGAATTATCTTGGTTCCGGAAAGCACAACTCCTGTCAGCG
upper sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G34660.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatgtcttttgccaataatgattaactgcatgtattatatagatacattatttttacttatataaaatgtaagttctaatagttttgttgttggttatgtgaacttggcttagGTATTATGCATGGGAGAGTAGTTTCCAGTCTAAAGTACAGATTGTCCGAGATGATGAATTATCTTGGTTTCGGAAAGCATCATTACTAGGAGCG
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--------------------------------gtaagaaattctagaaccaattttgttaacatagttattaatttgcaggaaacttgt-----actaaaccaaaatgctacagGTGTTATGCTTGGGAAAACAGTTTCCAGTCCAAGGTCCAAACTGTTCGTGATGATGAATTATCTTGGTTCCGGAAATCACAGCTCCTGGGAGCG
upper sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 13
gtatgtcttttgccaataatgattaactgcatgtattatatagatacattatttttacttatataaaatgtaagttctaatagttttgttgttggttatgtgaacttggcttagGTATTATGCATGGGAGAGTAGTTTCCAGTCTAAAGTACAGATTGTCCGAGATGATGAATTATCTTGGTTTCGGAAAGCATCATTACTAGGAGCG
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gtatgcttcatttagagaagggtt----gcttaaaaaaaatttcaacagtatttggcagttcagaaaaggataactctgaccatct-----------gtgctgaaatgatgcagGTGCTATGCATGGGAGAATAGTTTCCAATCCAAAGTTCAGAGTGTCAGGAATGAAGAATTGTCATGGTTCCGGAAAGCATCATTTCTGGGAGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatataaaatgtaagttctaatagttttgttgttggttatgtgaacttggcttagGTATTATGCATGGGAGAGTAGTTTCCAGTCTAAAGTACAGATTGTCCGAGATGATGAATTATCTTGGTTTCGGAAAGCATCATTACTAGGAGCG
ttctaat putative branch site (score: 2)
taatagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcttttgccaataatgattaactgcatgtattatatagatacattatttttacttatataaaatgtaagttctaatagttttgttgttggttatgtgaacttggcttagGTATTATGCATGGGAGAGTAGTTTCCAGTCTAAAGTACAGATTGTCCGAGATGATGAATTATCTTGGTTTCGGAAAGCATCATTACTAGGAGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG