Sequence
atgc intronic sequence ATGC exonic sequencegtagacagaattatggatatatggctcttatttgtcattaaccctcatcggatttcctaaataaattgaagcagaacattattaatctgattggtttcatggccagcatacaccaatgtaatctaactttagttaaccttgtcttaattttcagAGCTTGCAGAAGGAACATGCTTGAAGAATTATGAGTATCTTGGAAGTGGGGAGGTTTACGATAAAACGAATAAAAAGTGGACACTTGAGCTACCTTCGGA
Basic information
species | Glycine max |
transcript | GLYMA11G15890.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G15890.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g17950.1 (Oryza sativa), 3'ss of exon 5
gtagacagaattatggatatatggctcttatttgtcattaaccctcatcggatttcctaaataaattgaagcag-aacattat-taatctg--attggtt--------tcatggcc---agcatacaccaatgtaatctaactttagttaaccttgtcttaattttcagAGCTTGCAGAAGGAACATGCTTGAAGAATTATGAGTATCTTGGAAGTGGGGAGGTTTACGATAAAACGAATAAAAAGTGGACACTTGAGCTACCTTCGGA
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---gtgaatgtcttacactcaccatgttatttcataatggcatatcat-ggagcctttagctgaaatgatatactagtattatattttctagcatatgttggagcgaattatgactgagaataaattttggcatgatttgcatactattcacattctatcatgatacagAACTTGCTGAAGGAACATGCTTGAAGAATTATGATTATATGGGTCATGGAGATGGTTGCGGTAAATTGGAGAAAAAGTGGATCAGTGAACTGCCAACTGA
upper sequence: GLYMA11G15890.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G154316_T03 (Zea mays), 3'ss of exon 5
gtagacagaattatggatatatggctcttatttgtcattaaccctcatcggatttcctaaataaattgaagcagaacattattaatctgattggtttcatggccagcatacaccaatg-taatctaactttagttaaccttgtcttaattttcagAGCTTGCAGAAGGAACATGCTTGAAGAATTATGAGTATCTTGGAAGTGGGGAGGTTTACGATAAAACGAATAAAAAGTGGACACTTGAGCTACCTTCGGA
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-----------------------------gtgagtatcttgctttcacggtttcgcct---tttctcaaagtagccacctgcagatct------ttttgt--------tgaactagtgctggtataacttgtgtgcttctt-tctcaatga--agAACTCGCTGAAGGAACATGCTTGAAGAATTATGATTACATGGGTCATGGAAATGACTATGGTAAATCAGAAAAGAAATGGACCACCGAGCTACCTACTGA
upper sequence: GLYMA11G15890.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g03150.t01 (Vitis vinifera), 3'ss of exon 5
gtagacagaattatggatatatggctcttatttgtcattaaccctcatcggatttcctaaataaattgaagcagaacattattaatctgattggtttcatggccagcatacaccaatgtaatctaactttagttaaccttgtcttaattttcagAGCTTGCAGAAGGAACATGCTTGAAGAATTATGAGTATCTTGGAAGTGGGGAGGTTTACGATAAAACGAATAAAAAGTGGACACTTGAGCTACCTTCGGA
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-----------------------------------------------ttaaatcattaaatcatattaagtgattagattgttttgccaaatgttcccttagt--gtatgca---atttaaccttggtttgccca--cttgtggaatttcacagAGCTTGCTGATGGAACCTGCTTGAAGAATTATGAGTATCTCGGAAATGGAGAGGTTTATGACAAAAGGAACAAGAAGTGGACTCTTGAGCTTCCTACTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggccagcatacaccaatgtaatctaactttagttaaccttgtcttaattttcagAGCTTGCAGAAGGAACATGCTTGAAGAATTATGAGTATCTTGGAAGTGGGGAGGTTTACGATAAAACGAATAAAAAGTGGACACTTGAGCTACCTTCGGA
ccttgtctt CT-rich tract
tcttaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagacagaattatggatatatggctcttatttgtcattaaccctcatcggatttcctaaataaattgaagcagaacattattaatctgattggtttcatggccagcatacaccaatgtaatctaactttagttaaccttgtcttaattttcagAGCTTGCAGAAGGAACATGCTTGAAGAATTATGAGTATCTTGGAAGTGGGGAGGTTTACGATAAAACGAATAAAAAGTGGACACTTGAGCTACCTTCGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA