Sequence
atgc intronic sequence ATGC exonic sequencegtatggatcctgcggagtctgaatgcttaaacaagtattgaatgtccttgtatcttaaatgaaagaaactattgaatacctctgaatgccaaacatctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
Basic information
species | Glycine max |
transcript | GLYMA20G00320.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os10g34710.1 (Oryza sativa), 3'ss of exon 14
gtatggatcctgcggagtctgaatgcttaaacaagtattgaatg-tccttgtatcttaaatgaaagaaactattgaatacctctga---atgccaaacatctgcttatgcacgtggattgatttc-------agGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
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---------------------------------gcttttctgtgctttttgttaactaaatggaagac-ttggtaggtgttactaattcacagcagagatttttctctaaattttctctgatgtcttcgaacagGAATACGTTGAAGATGGCATTGACTGGGCAAAGGTTGAGTTTGAGGACAATCAGAACTGTTTGAATCTCTTTGAGAAA
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
---gtatggatcctgcggagtctga--atgcttaaacaagtattgaatgtcct----tgtatcttaaatgaaagaaactattgaatacctc---tgaatgccaaacat-ctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
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gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 15
gtatggatcctgcggagtctgaatgcttaaacaagtattgaatgtccttgtatcttaaatgaaagaaactattgaatacct-ctgaatgccaaacatctgcttatgcacgtggattgatttc-agGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
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--------gtaacgtaaacccctttctgctatgggtccttgtagtatatctaggcagagcatggacatgtacacaccagctaccgagttctgaggg---atttatatttctgtcttctcttccagGAATATATTCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAGAATGTCTTAGTCTCTTTGAAAAG
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
gtatggatcctgcggagtctgaatgcttaaacaagtattgaatgtccttgtatcttaaatgaaagaaactattgaatacctctgaatgccaaacatctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
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-----------gtgca-ttttaatctccttattcctatctagtgaagaactatcttttgctagata------tgacaacccttgttt---taatatattgatatcaaaatttctt--tttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattgaatacctctgaatgccaaacatctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
gattgat putative branch site (score: 4)
attgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggatcctgcggagtctgaatgcttaaacaagtattgaatgtccttgtatcttaaatgaaagaaactattgaatacctctgaatgccaaacatctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA