Sequence
atgc intronic sequence ATGC exonic sequencegtctgttgtttcacagagcaaaatttttgcaatcgattttgttacattctatttgcataatgttgcatgggcttgaagttgttttttatttttttttttaatttttgtaagcttccaatatgctaaactgttgtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
Basic information
species | Glycine max |
transcript | GLYMA10G23680.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 19
gtctgttgtttcacagagcaaaatttttgcaatcgattttgttacattctatttgcataatgttgcatgggcttgaagttgttttttattttttttt---ttaatttttgtaagcttccaatat-gctaaactgtt----gtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
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------------------------------------------------------------------gttaacctttcacctctttttgtttttttttgggtcagttagcatagtttttctgcataggtaaaatacaaagggatttatactatctggtgcagACATCAGACATATTGTATTATGAGGTGTTGGATATTCCACTGCCAGAATTGCAGGGCCTGAAAACCCTGAAAGTTGCATTCCACCATGCTACAAAGGATG
upper sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 2
gtctgttgtttcacagagcaaaatttttgcaatcgattttgttacattctatttgcataatgttgcatgggcttgaagttgttttttatttttttttttaatttttgtaagcttccaatatgctaaactgttgtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
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----------------------------------------gtta-accttttttgtttggt-caatatgagcatgat-----------ttctgtgtaacaaatgtgttggacttcc----tactaaagcgccatctggta----------cagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
upper sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 23
gtctgttgtttcacagagcaaaatttttgcaatcgattttgttacattctatttgcataatgttgcatggg-cttgaagttgttttttatttttttttttaatttttgtaagcttccaatatgctaaactgttgtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
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-------------------------------------gttgt-gctttagattgctgtgattctgcatgagactttatcatgccttcatgtttcctttgtgtgtttagttggct---gacataaaacaatttttttttttgttttgg---atagACTTCTGATATACTATATTATGAAGTATTGGACATCCCTCTGCCAGAACTACAAGGTCTTAAAACTTTGAAAGTTGCCTTTCACCATGCTACAAAGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatttttgtaagcttccaatatgctaaactgttgtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
tgctaaa putative branch site (score: 2)
ttttgcttct putative PPT
tttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgttgtttcacagagcaaaatttttgcaatcgattttgttacattctatttgcataatgttgcatgggcttgaagttgttttttatttttttttttaatttttgtaagcttccaatatgctaaactgttgtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG