Sequence
atgc intronic sequence ATGC exonic sequencegtctagaaaagaatttatctccttggaaagatttgcattgttagaacctgatcataaataaggatgtaaaattattcaattaaaataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACACGGGCTGTTCGATGTACGCATAAAGGCTACAGGTGACATACATATTGATGATCATCACACGAATGAAGACGTTGCCCTTGCTATTG
Basic information
species | Glycine max |
transcript | GLYMA10G39370.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G39370.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G14910.2 (Arabidopsis thaliana), 3'ss of exon 2
--------------------------------gtctagaaa---agaatttatctccttggaaagatttgcattgttagaacctgatcataaataaggatgtaaaattattcaattaaaataatagtta--tggaaactaaacttggttgtgatttttc-----agCAACTTGCTTCACACGGGCTGTTCGATGTACGCATAAAGGCTACAGGTGACATACATATTGATGATCATCACACGAATGAAGACGTTGCCCTTGCTATTG
||| | | | ||||| | | |||| || ||| | | | | | || | ||| || | | || | | | | | | ||| |||||||| || |||||||||||||||| || |||||||||||| | ||| ||||| ||||| | || |||||||||||||| || |||||||| ||||| ||||| ||||
gtaactaaacctttctccgtatcaatttgattttctgggagttgaaaatttcctcatgtttgattatttttgacattggaaagagcttaaacacttatgagtcggttcattttatatatgttgtattgaaattttatcaagtgttgtttgtgattcttttgattagCAACTTGCTTCACATGGCTTGTTCGATGTACACGTAAGAGCTACTGGTGATACTCACATTGATGATCATCATACTAATGAAGATGTTGCTCTTGCCATTG
upper sequence: GLYMA10G39370.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g03430.t01 (Vitis vinifera), 3'ss of exon 2
gtctagaaaagaatttatctccttggaaagatttgcattgttagaacctgatcataaataaggatgtaaaattattcaattaaaataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACACGGGCTGTTCGATGTACGCATAAAGGCTACAGGTGACATACATATTGATGATCATCACACGAATGAAGACGTTGCCCTTGCTATTG
| | | || | | ||| || | | | || | | | | ||| | | ||| | | | | || || | || | |||||||||| | || |||||||| || || | | || || || ||||||| ||| |||||||||||||| || |||||||| ||||| ||||| | |
------------------------gtcagtacttttaat-ttaacttatgtttctgttagggaatttgatttggtgacattggtgttcttgtttttattattta-tttattttt--ttctatagCAACTTGCCACGCATGGGCTGTTTGACGTTTGTGTGAAAGCGACCGGTGACACACACATTGATGATCATCATACAAATGAAGATGTTGCACTTGCGCTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattattcaattaaaataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACACGGGCTGTTCGATGTACGCATAAAGGCTACAGGTGACATACATATTGATGATCATCACACGAATGAAGACGTTGCCCTTGCTATTG
aactaaa putative branch site (score: 2)
tttttc putative PPT
aattaaaataatagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctagaaaagaatttatctccttggaaagatttgcattgttagaacctgatcataaataaggatgtaaaattattcaattaaaataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACACGGGCTGTTCGATGTACGCATAAAGGCTACAGGTGACATACATATTGATGATCATCACACGAATGAAGACGTTGCCCTTGCTATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA