Sequence
atgc intronic sequence ATGC exonic sequence...ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcattttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
Basic information
species | Glycine max |
transcript | GLYMA15G07110.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 3'ss of exon 4
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcatt-ttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
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----------gtaagttttgattttgtatgga--aaacttttctttttcctatgaatatgcttcg-catgcatgaaacacattcaaaattgtttattgcagGAGGATCTCTACTACTCCCATCCCCTAATACAAGATCTGATGTGGGATAGTTTGTACATATGTACTGAGCCTCTTCTTACTCGTTGGCCCTTCAACAAGT
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 3'ss of exon 6
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatg--taatttttttatg-ataaaaatgatatttattcattttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
| | | ||||||||| | || ||| | |||| || | ||| || ||| | ||||| | || | || ||||| ||||| ||||| ||||||| |||||||||||| | |||||||||||||| ||| |||||||||||||| | | ||||||| ||||| ||||
----------gtaagttttgattttttatggaaacaatttctttttcctatgaatatgctacgcatgcatgaaacacacatttaaaattgtttaatattgcagGAGGATCTCTACTACCCCCATCCCCTAATACAAGATCTAATGTGGGATAGTTTGTACATATGTACCGAGCCTCTTCTTACTCGTTGGCCCTTCAAAAAGT
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 6
ataagagtgcatttgaataaattttttattaattaaaattcacatatata-tgtaatttttttatg-ataaaaatgatatttattcatt-ttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
||| ||| | ||| || | ||| | | ||| | ||| | | | | || | | | | ||||| || | || ||||| ||||| ||||| ||||||| ||||||||||| | |||||| ||||||| ||| |||||||||||||| | | ||||||| ||||||||||
------gtgagttt-----agctttctaacaga-aaagctttcgtatttcctgtgaatataacgtacatgcatgaaacactcattcaaaattgtttattgcagGAGGATCTCTACTACCCCCATCCCCTAATACAAGATCTGATGTGGGATGGTTTGTACATATGTACCGAGCCTCTTCTTACTCGTTGGCCCTTCAACAAGT
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 2
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcatt-ttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
| | | ||||||||| | || | | | | | | | | | | || | |||| | ||||| || | || ||||| ||||| ||||| ||||||| |||||||||||| | |||||||||||| | ||| ||||||||| |||| | | ||||||| ||||||||||
----------gtaagttttgattttttatgga--aacaatttctttttcgtatgaatatgctacg-cgtgcatgaaacacattcaaaattgtttatttcagGAGGATCTCTACTACCCCCATCCCCTAATACAAGATCTAATGTGGGATAGTTTGAACATATGTACCGAGCCTTTTCTTACTCGTTGGCCCTTCAACAAGT
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 3'ss of exon 6
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcattt-tatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
| | | ||||| ||| | | ||| | ||| ||| | | || | | | ||||| | | | || |||| ||||| ||||| ||||||| ||||||||||| | |||||||||||||| ||| |||||||||||||| | | ||||||| ||||||||||
----------gtaagttttgattttgtatggaacacttttccttttccgatg-aatatgctacgcatgcatgaaacacacattcaaatatgtttattgtagGAGGATCTCTACTACCCCCATCCCCTAATACAAGATCTGATGTGGGATAGTTTGTACATATGTACCGAGCCTCTTCTTACTCGTTGGCCCTTCAACAAGT
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01480.t01 (Vitis vinifera), 3'ss of exon 7
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcattt-tatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
| | | ||||| ||| | | ||| | ||| ||| | | || | | | ||||| | | | || ||||| ||||| ||||| ||||||| ||||||||||| | |||||||||||||| ||| |||||||||||||| | | ||||||| ||||||||||
----------gtaagttttgattttgtatggaacacttttccttttccgatg-aatatgctacgcatgcatgaaacacacattcaaatatgtttattgcagGAGGATCTCTACTACCCCCATCCCCTAATACAAGATCTGATGTGGGATAGTTTGTACATATGTACCGAGCCTCTTCTTACTCGTTGGCCCTTCAACAAGT
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 6
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcatt-ttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
| | | ||||| ||| | | ||| | ||| ||| | | || | | | |||| || | || ||||| ||||| ||||| ||||| | ||||||||| | | |||||||||||||| ||| |||||||||||||| | | ||||||| ||||||||||
----------gtaagttttgattttgtatggaacacttttccttttccgatg-aatatgctacgcatgcatgaaacacactttcaaaattgtttattgcagGAGGATCTCTACTACCCCCACCCCCTAATACAAGATATGATGTGGGATAGTTTGTACATATGTACCGAGCCTCTTCTTACTCGTTGGCCCTTCAACAAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatgtaatttttttatgataaaaatgatatttattcattttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
taatttttttatgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataagagtgcatttgaataaattttttattaattaaaattcacatatatatgtaatttttttatgataaaaatgatatttattcattttatactttacagGAAGATCTTTACTATCCCCATCATTGGATACAAGATCTATTATGGGATAGTTTGTATGTATTCACCGAGCCTCTTCTAAATTGTTGGCCTTTCAACAAGT
- - - -tgcattt
- - - - - - - - - - - - - - - - - - -attcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaa