Sequence
atgc intronic sequence ATGC exonic sequencegtaataaagttttgttgtacataattacatttgagtgcacctactaacatatcaaatgttgaatttttggtaaattagtgcaactatttaactaaattactatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
Basic information
species | Glycine max |
transcript | GLYMA16G01660.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g13590.1 (Oryza sativa), 3'ss of exon 8
gtaataaagttttgttgtacataattacatttgagtgcacctactaacatatcaaatgttgaatttttggtaaattagtgcaactatttaactaaatta--ctatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
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------------ccttctttctgataatttgtgagtaaagg----aatgcagtatatctgtatgttttaaggattcatttttttcaacaaagttatttatgctacattaattgcagTTCAACCGCGGAACCAGTGCTATGCAACATTATGTTGCAACACGGCCAATGTTTATTGATGTGGATATTATGAGCATTGATATTCAAGTTGTTCTTGGTG
upper sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaataaagttttgttgtacataattacatttgagtgcacctactaacatatcaaatgttgaatttttggtaaattagtgcaactatttaactaaattactatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
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---------gttaattctacataaagctgtcacagaaggaat----ggatgtctagt-tctcctcttgtacatatggttcttgatacttagtattttttcttcttgattttcagTTTAACAGGGGTACAAGTGCTATGCAACATTATGTGGCTACACGTCCAATGTTTATTGATGTGGAAGTCATGAATTCAGACATTAGGTTGGTTCTTGGTG
upper sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 8
gtaataaagttttgttgtacataattacatttgagtgcacctactaacatatcaaatgttgaatttttggtaaattagtgcaactatttaactaaattactatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
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--------atggtgtagtttcaggttagatat-aataaatttgccaaga----aattgtcaagctattgaaggatttctactctcttctaacccctatgtt-tttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatttttggtaaattagtgcaactatttaactaaattactatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
aactaaa putative branch site (score: 2)
aactatttaactaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataaagttttgttgtacataattacatttgagtgcacctactaacatatcaaatgttgaatttttggtaaattagtgcaactatttaactaaattactatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG