Sequence
atgc intronic sequence ATGC exonic sequencegtaagttagacatgattttcttttagtatatagagctttaatttggttttgtttgatgctcatcatgctttaattgtatgtcacaatcttattttatttactcaatttacatcccttgttattctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
Basic information
species | Glycine max |
transcript | GLYMA13G29380.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------gtaagttagacatgattttcttttagtatat--agagctttaatttggttttgtttgatgctcatcatgc---tttaattgtatgtca--caatcttattttatttactcaatttacat-cccttgtt-----attctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
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gtaagtagagcgttacattgattttaggaatgactattttgtgactgaaacataagtttaccctctttgttgctttgttgatcaatagttgtggcaatatcatcactaaatttaaacatccaaatttaatatcctcctgattaatgtattgatgcgtgaccacctctcttacctttgtttgcaaatgttcttggactagGTCGTTGGGCCAAACATCCCCATGCTTGAATGCATTTGCAGCAGGACAAGCTGCAGCATATAAGATGTTTGAGACTATCAAACGAAAACCACAAATTGAT
upper sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0003g02580.t01 (Vitis vinifera), 3'ss of exon 5
gtaagttagacatgattttcttttagtatatagagctttaatttggttttgtttgatgctcatcatgctttaattgtatgtcacaatcttattttatttactcaatttacatcccttgttattctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
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gtaagtatagtatcaaaatgatttggtgaatcacagtt-attttgtcaccatgaacagcttacta---tcaaattgagtatta----ctcatatcaatgtattaa--tacttgagatggtctccggt----atagGTCATTGGGCCAGGCATCCCCATGTCTAAGTGCTTTTACAGCAGGGCAGGCAGCAGCATATAAGATGTTTGAGACAATCAAACGGAAACCAAAAATTGAT
upper sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 6
--------------------gtaagttagacatgattttcttttagtatatagagctt-------taatttgg----ttttgtttgatgctcatcatgcttta--attgtatgtcacaatcttattttatttactcaatttacatcc-cttgttat--tctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
| | || ||| || | | ||| || ||||| ||| |||| || |||| | | || || || || |||| || | ||| | ||| || || | |||| || ||| | |||| || | || |||||| | || || | | ||| |||| |||||| || || |||||||| |||||||||||||| || |||||||| |||||||| |
gtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtatg-attcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
upper sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ32016 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttagacatgattttcttttagtatatagagctttaatttggttttgtttgatgctcatcatgctttaattgtatgtcacaatcttattttatttactcaatttacatcccttgttattctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
| | || | || | || | | | || || ||| | | | | ||| | | | | | || || || ||| |||| || ||||| | || | | ||| |||||||||||||||||||| || || ||||||||||| || | || ||| ||| |||
-------------------------------gtaagctggatatctcgcagtct-atatcaaccttaattcaacagtaagaaaagctggtctttaaaatttcttacaatagcgctgtattgaacttgtagtgcagGGCACTGGGCCAGGCTTCACCATCTCTGCGTGCCTTTGCAGCAGGCCAAGCAGCTGCGTACAAGATGTTTGAAGTTATACATCGTGTGCCTGCAATCGAT
upper sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ37835 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttagacatgattttcttttagtatatagagctttaatttggttttgtttgatgctcatcatgctttaattgtatgtcacaatcttattttatttactcaatttacatcccttgttattctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
| | || | || | || | | | || || ||| | | | | ||| | | | | | || || || ||| |||| || ||||| | || | | ||| |||||||||||||||||||| || || ||||||||||| || | || ||| ||| |||
-------------------------------gtaagatggatatctcgcagtct-atatcaaccttaattcaacagtaagaaaagctggtctttaaaatttcttacaatagcgctgtattgaacttgtagtgcagGGCACTGGGCCAGGCTTCACCATCTCTGCGTGCCTTTGCAGCAGGCCAAGCAGCTGCGTACAAGATGTTTGAAGTTATACATCGCGTGCCTGCAATCGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacaatcttattttatttactcaatttacatcccttgttattctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
ttctgtt CT-rich tract
atcttattttatttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttagacatgattttcttttagtatatagagctttaatttggttttgtttgatgctcatcatgctttaattgtatgtcacaatcttattttatttactcaatttacatcccttgttattctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG