Sequence
atgc intronic sequence ATGC exonic sequence...actgtaatatgttccaaatgaagaacaatatttttgttttagtttcttggtgatttacattcttttttgccttgcatatatgtaatttgtaaactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA
Basic information
species | Glycine max |
transcript | GLYMA09G03560.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G03560.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G06480.1 (Arabidopsis thaliana), 3'ss of exon 6
----------actgtaatatgttcca--aatgaagaacaatatttttgttttagtttcttggtgatttacattcttttttgccttgcatatatgtaatttgtaaactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA
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gtgatgatcatctaaaccattttatatcactgtaaagcaatacttacacataa----cttggtgatg-aggtta--------ctgaagcaaacccatccttataac--gcagTATGTTGAAGTAGTCCCACAAATGGAGAAAGAGAGACGTTTGGAGCAAATCCTTAGGTCACAAGAACGAGGTTCAAAAGTTATAATATTTTGCTCCACGA
upper sequence: GLYMA09G03560.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g00470.t01 (Vitis vinifera), 3'ss of exon 5
actgtaatatgttccaaatgaagaacaatatttttgttttagtttcttggtgatttacattcttttttgccttgcata-tatgtaatttgta--aactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA
| ||||| | || || | | | | | | | | | | || | | | |||| || || | || | | |||| | ||| ||||||||||||||| || ||| | ||| || |||||||| ||||| ||||| || |||||||||||||||||||||||||| || || || ||||||||||
---gaaatattctgcacattgtgcatatcactctgcatcttctatatttgcactattttttctccaactatttacaaagtaagaattttgcatgaacctgcagTATGTTGAAGTAGTTTCACCACCGGAAAAGCAGAGGCGCTTGGAACAGATACTTAGATCCCAAGAACGGGGTTCTAAGGTCATCATCTTCTGTTCCACAA
upper sequence: GLYMA09G03560.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S138_142V6.1 (Physcomitrella patens), 3'ss of exon 6
----------------------------actgtaatatgttccaaatgaagaacaatatttttgttttag--tttcttggtgatttacattc-----ttttttgccttgcata--------tatgtaatttgtaaactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA
|| | | ||||| ||| | | || |||| | || ||| || | || | || ||| ||||| || | | | |||| | | |||| |||| || || || | |||||||||||||| | ||||||||||| |||| ||||| | ||||| ||| |||| |||||||||||||| |
gttcgaatttgagtttctgcactcagactctttgttgtgttcggtgtgagatatatcgattcagtttcaaacttactttctggtccacctctgtctattcttttccttgactaaagctctttgtctgattttttg-tttgcagAATGTGGAGGTAGTTGTGCCCTACGAGAAACAGAGGCGACTAGAGCAGATTCTACGATCACAAGAGCCTGGTTCCAAGATTATCATATTTTGTTCCACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttggtgatttacattcttttttgccttgcatatatgtaatttgtaaactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA
atatatgtaatttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actgtaatatgttccaaatgaagaacaatatttttgttttagtttcttggtgatttacattcttttttgccttgcatatatgtaatttgtaaactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - aatgaag
- - - - - - - - - - - - - - - - - - - - - - -cttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatata