Sequence
atgc intronic sequence ATGC exonic sequencegtcagtaatgcctgtatagcttcatgttatgaactgacatcaaatacttttgagccttctttattatttaacccacattccaatacatatcatagtgtacattgtgagcaagcaggctactagcctactgttattttttcatgttggtttgctaacagctatggatttgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATCGGGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTT
Basic information
species | Glycine max |
transcript | GLYMA11G15890.1 |
intron # | 4 |
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 4
lower sequence: LOC_Os03g17950.1 (Oryza sativa), 3'ss of exon 6
gtcagtaatgcctgtatagcttcatgttatgaactgacatcaaatacttttgagccttctttattatttaacccacattccaata-ca-tatcatagtgtacattgtgagcaagcaggctactagcctactgttattttttcatgttggtttgctaacagctatggatttgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATCGGGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTT
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-----------------------------------------------------------------cttgggttcattctttgatggcactgttcttgcaagaactttttccaaaaaa---aaaagtccagtattatta----atgttattccccc--ctgct-tggattttccagGGAAGAACGGCATTGTGGGATGCTATCTTGCTTCTGTGCCACCAAATAAATGTTGGTTATGGCGGTGTAGTTAGGGGAATCCACATAGGTTCTTCCGCCT
upper sequence: GLYMA11G15890.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g03150.t01 (Vitis vinifera), 3'ss of exon 6
gtcagtaatgcctgtatagcttcatgttatgaactgacatcaaatacttttgagccttctttattatttaacccacattccaatacatatcatagtgtacattgtgagcaagcaggctactagcctactgttattttttcatgttggtttgctaacagctatggatttgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATCGGGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTT
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-------------------------------------------------------------tgtc-tttgctctatatgtttgcaaa-atatctatgtgctttatatgattgcagac-----acacaaggtgagtttta---gtagtaacatttggatctttg--tttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAGTACGGCTATGGGGGAATCATCCGGGGCATGCATCTTGGTTCTTCTGCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actagcctactgttattttttcatgttggtttgctaacagctatggatttgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATCGGGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTT
tgctaac putative branch site (score: 1)
ttattttttcatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtaatgcctgtatagcttcatgttatgaactgacatcaaatacttttgagccttctttattatttaacccacattccaatacatatcatagtgtacattgtgagcaagcaggctactagcctactgttattttttcatgttggtttgctaacagctatggatttgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATCGGGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT