Sequence
atgc intronic sequence ATGC exonic sequence...tgatcccttttaatctttggatgatcattatcattatcataatatcatgggattatggtattactgaaatcaatataataacctttctttgaattttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
Basic information
species | Glycine max |
transcript | GLYMA01G01470.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G01470.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G016858_T01 (Zea mays), 3'ss of exon 2
tgatcccttttaatctttggatgatcattatcattatcataatatcatgggat-tatggtattactgaaatcaatataa-taacc--tttctttgaattttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
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---ccatagccaagatttcaagagtcaatttaccta-caaagaggcatggagtgcactgtaaaagagttacccttttatctcaccacttgcattatgcttgcagGTTGCAAATGTTCAGTGTCCCCGTGACACTCATTTTTGGGTTTATGACGATGGTCGTTATGAGGAAGAAGGTCAAAACAACATAAAAGGAAAAATATGGG
upper sequence: GLYMA01G01470.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G31930.3 (Arabidopsis thaliana), 3'ss of exon 3
tgatcccttttaatctttggatgatcattatcattatcataatatcatgggattatggtattactgaaatcaatataa-taacctttctttgaat-tttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
||| |||| ||| || | | | ||||| | | | | | | ||| |||| | | | | | | | || | |||||| |||||||| ||||||||||||||||| || |||||||| ||||||||||| ||||||||||| ||||| || ||||||||| |||||||||||||||
---------gtaacgtttga-----tattgtcttgttttaagtatcacatg-tcaagaaacaatcgaatataataaaccttgcttgtgtgtatatatctcagCTAGCAAATGTACAGTGTCCACGTGATACTCATTTTTGGGTATATGACGATGGACGTTATGAGGAAGAAGGGCAGAATAATATCCGAGGAAACATTTGGG
upper sequence: GLYMA01G01470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0012g02570.t01 (Vitis vinifera), 3'ss of exon 2
tgatcccttttaatctttggatgatcattatcattatcataatatcatgggattatggtattactgaaatcaatataataaccttt-----ctttgaattttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
| ||| | | || |||||| | | | || ||| || | || || || ||| |||| || || | |||||||||||||||| ||||||||||| || ||||| || ||||||||||| ||||| |||||||||||||||||||| ||||||||||| ||||| || ||||
---aagcacttagcccatatgatatgattatctgtctt-tcctaatttggtcttgtagt-ttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgggattatggtattactgaaatcaatataataacctttctttgaattttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
taataac putative branch site (score: 1)
cctttctttg CT-rich tract
tattactgaaatcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatcccttttaatctttggatgatcattatcattatcataatatcatgggattatggtattactgaaatcaatataataacctttctttgaattttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - -tggatga
- - - - - - - - - - - - - - - - - - - - - - tcatggg