Sequence
atgc intronic sequence ATGC exonic sequence...attgaaataagtgtgctgagtttgtattttaagacaatatgcttattagttaccaattatgttgtaaagctattttatttattttggaaacatgtttcagGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
Basic information
species | Glycine max |
transcript | GLYMA05G28580.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28580.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G13800.1 (Arabidopsis thaliana), 3'ss of exon 6
attgaaataagtgtgctgagtttgtattttaagacaatatgcttattagttaccaattatgttgtaaagctattttatttattttggaaacatgtttc-agGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
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----------------------------gtaataacaaatattggttgattgtcacatttcaattttttccgactaacaaatcctgttttcatctttggagGCTCTGGATAATTTCAACACAGCAGTCATATCTCCAGTGTACTATGTTATGTTTACAACATTCACCATCTTAGCTAGTATGATCATGTTCAAG
upper sequence: GLYMA05G28580.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0029g00620.t01 (Vitis vinifera), 3'ss of exon 5
attgaaataagtgtgctgagtttgtattttaagacaatatgcttattagttaccaattatgttgtaaagctattttatttattt-tggaaacatgttt---cagGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
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---cagattcttgacatgctctaaagttaatttattttagaaattttaact-ccagtcctattctaagcagaatctggatcttgatgatggctcgtctgtgtagGCACTGGACACCTTTAACACGGCTGTTATATCTCCGGTGTACTATGTCATGTTTACTACCCTCACCATTCTTGCCAGCATGATCATGTTTAAG
upper sequence: GLYMA05G28580.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ15113 (Selaginella moellendorffii), 3'ss of exon 6
attgaaataagtgtgctgagtttgtattttaagacaatatgcttattagttaccaattatgttgtaaagctattttatttattttggaaacatgtttcagGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
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---------------------------------gtaactcggtcattt-tcattttttccttgtttcttttccgttgctcatacaaggttttccttgcagGCGTTAGATACTTTTAATACTGCAGTTGTATCTCCAATTTACTATGTCATGTTTACCTCCTTGACAATCGTAGCTAGCGTCATCATGTTCAAG
upper sequence: GLYMA05G28580.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ16080 (Selaginella moellendorffii), 3'ss of exon 6
attgaaataagtgtgctgagtttgtattttaagacaatatgcttattagttaccaattatgttgtaaagctatt-ttatttattttggaaacatgtttcagGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
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---------------------------------gtaactcggtcattt-tcatttctttccttgtttctttgccgttgctcatacaaggttttccttgcagGCGTTAGATACTTTTAATACTGCAGTTGTATCTCCCATTTACTATGTCATGTTTACCTCCTTGACAATCGTAGCTAGCGTCATCATGTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagttaccaattatgttgtaaagctattttatttattttggaaacatgtttcagGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
aattatgttgtaaagc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgaaataagtgtgctgagtttgtattttaagacaatatgcttattagttaccaattatgttgtaaagctattttatttattttggaaacatgtttcagGCTTTGGACACCTTTAACACTGCAGTTGTATCACCAATTTACTATGTCATGTTTACATCATTCACCATCTTTGCCAGCATAATCATGTTTAAG
- - - - - -tgtgctg
- - - - - - - - - - - - - - - - - - -tatgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgta