Sequence
atgc intronic sequence ATGC exonic sequence...gcctagcatacacttccgcaaattctagaatatttttgttcagctgatcttatttttctgaagtgttgtagatctgatatgaaaagtttgtactttgcagGCATATGCTGCTGCTGGGACAGTGAGCCAAAACTATGCTAATATTCTTTTAATGCTTTTACGTCTCCGACAGGCTTGTGACCACCCGCTTCTTGTTAAAG
Basic information
species | Glycine max |
transcript | GLYMA10G43430.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G50410.1 (Arabidopsis thaliana), 3'ss of exon 7
gcctagcatacacttccgcaa-attct-----agaatatttttgttcagctgatcttatttttctgaagtgttgtagatctgatatgaaaagtttgtactttgcagGCATATGCTGCTGCTGGGACAGTGAGCCAAAACTATGCTAATATTCTTTTAATGCTTTTACGTCTCCGACAGGCTTGTGACCACCCGCTTCTTGTTAAAG
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tataaacataggttatggaggcattttcgttgaaaaaaatgttttgcagtgattcctgatttcctgtcaagt-----atgtgagatgatat-ttttttctctgcagGCATATGCTGCTGCAGGAACTTTGAATCAAAACTATGCAAACATTCTTCTCATGCTTTTGCGACTACGCCAAGCTTGTGACCACCCCCAACTTGTTAAAA
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 6
gcctagcatacacttccgcaaattctaga-atatttttgttca-gctgatcttatttttctgaagtgttgtagatctgatatgaaaagtttgtactttgcagGCATATGCTGCTGCTGGGACAGTGAGCCAAAACTATGCTAATATTCTTTTAATGCTTTTACGTCTCCGACAGGCTTGTGACCACCCGCTTCTTGTTAAAG
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-tttttgatgatctcttggagatcaaaactatgctgttggttataattgaagcagagttatcaagtatc-tggaaataatgatttttttttttgtgttgcagGAATATGCAGCTGCTGGCACTGTTAATCAAAATTATGCAAATATTCTCCTTATGCTTTTGCGACTTCGTCAGGCTTGTGACCACCCACTTCTTGTAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcttatttttctgaagtgttgtagatctgatatgaaaagtttgtactttgcagGCATATGCTGCTGCTGGGACAGTGAGCCAAAACTATGCTAATATTCTTTTAATGCTTTTACGTCTCCGACAGGCTTGTGACCACCCGCTTCTTGTTAAAG
atctgat putative branch site (score: 4)
tatttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctagcatacacttccgcaaattctagaatatttttgttcagctgatcttatttttctgaagtgttgtagatctgatatgaaaagtttgtactttgcagGCATATGCTGCTGCTGGGACAGTGAGCCAAAACTATGCTAATATTCTTTTAATGCTTTTACGTCTCCGACAGGCTTGTGACCACCCGCTTCTTGTTAAAG
-cctagca
- - - - - cacttcc
- - - - - - - - - - - - - - - - - - - - cagctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg