Sequence
atgc intronic sequence ATGC exonic sequence...aaagtgagtttatatatgatggttcacaatttggaaattcttgaaccaatatatttggatggaagaataatctctattgatatggtgattttccatttagGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
Basic information
species | Glycine max |
transcript | GLYMA19G32010.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 4
aaagtgagtttatatatgatggttcacaatttggaaa------ttcttgaaccaatatatttggatggaagaataatctctattgatatggtgattttccatttagGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
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-----gtacttatctccaagactcttttatttagtaaagactgtttttggaagagaatgcaaaggtgaaactgtgttttactaaattatggtt-tgatgattttagGATGAAGCTGGAACAGCAGCTGTTAAAACAGTTGAACTCGATGCAGTTCTTGGAGGCCGTGCTGTCCAACACCGGGAAATTCAGGGTCATGAATCTGACA
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 5
aaagtgagtttatatatgatggttcacaatttggaaattcttgaaccaatatatttggatggaagaataatctctattgatatggtgattttccattt-agGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
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---------gtatttatttttgggcatgat---agcatatattacgttctaaatttgaatcg-----tcattattactaatctg-cgattgataattccagGATGAAGCTGGAACAGCAGCTGTCAAGACAGTTGAACTTGATGCAGCTCTTGGAGGCCGAGCTGTCCAATATCGTGAAATTCAAGGTCATGAATCTGACA
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
aaagtgagtttatatatgatggttcacaatttggaaattcttgaaccaatatatttggatggaagaataatctctat---tgatatggtgattttccattt------agGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
||| | | | ||| | || || | | || | ||| | | | ||||| | ||| ||| || | | || | | ||||||| ||||||||||||| || |||| |||||| || ||| | ||||||||| |||||||| |||||||| ||| ||||||| | || |||||||
-------------gtattactacttcc--ttttgttcttattcagaaattacacttg--tagtaaaataacgtttatgcttgaaattgcaacttctggtcttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaatatatttggatggaagaataatctctattgatatggtgattttccatttagGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
tattgat putative branch site (score: 3)
ttttccattt putative PPT
aagaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagtgagtttatatatgatggttcacaatttggaaattcttgaaccaatatatttggatggaagaataatctctattgatatggtgattttccatttagGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - -gatggtt
- - - - - - - - - - - - - - - - - - - -cttgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatggtg