Sequence
atgc intronic sequence ATGC exonic sequence...ctttgtatcttgaaaacttaacattaaaggttactaaggatataaaattattcaattgagataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACATGGGCTGTTCGATGTACACGTAAAGGCTACAGGTGATGTACATATTGATGATCATCACACAAATGAAGACGTTCCCTTGCTATTGG
Basic information
species | Glycine max |
transcript | GLYMA02G13140.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G13140.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G14910.2 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------------ctttgtatcttgaaaactt-aacattaaaggttactaagga---tataaaattattcaattgagataatagttatggaaactaaac------ttggttgtgatttttc-----agCAACTTGCTTCACATGGGCTGTTCGATGTACACGTAAAGGCTACAGGTGATGTACATATTGATGATCATCACACAAATGAAGACGTT-CCCTTGCTATTGG
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gtaactaaacctttctccgtatcaatttgattttctgggagttgaaaatttcctcatgtttgattatttttgacattggaaagagcttaaacacttatgagtcggttcattttatatatgttgtattgaaattttatcaagtgttgtttgtgattcttttgattagCAACTTGCTTCACATGGCTTGTTCGATGTACACGTAAGAGCTACTGGTGATACTCACATTGATGATCATCATACTAATGAAGATGTTGCTCTTGCCATTG-
upper sequence: GLYMA02G13140.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G22425.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------------ctttgtatcttgaaaacttaacattaaaggtta---ctaaggatataaaatt-attca--attgagataatag-------------ttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACATGGGCTGTTCGATGTACACGTAAAGGCTACAGGTGATGTACATATTGATGATCATCACACAAATGAAGACGTT-CCCTTGCTATTGG
| | || | ||||||| | || ||||||| | || ||||| |||| || | |||||| | ||| ||| | || ||||||||||||| ||||| |||| ||||| ||||| | ||||| |||||||| || ||||||||||||||||| |||||||| | | ||||| ||||
gtaaagtctttgcctttaaacctttttgtcatgtatttttgatttcttcagtttccattggaagagagcttaacacagactttttaatttaaggatcttgttttgattcattattggaatgttgactgattgatgtttttatggtttcactctttgtctgtcttggtttagCAACTTGCTTCGCATGGCTTGTTTGATGTGCACGTTAGAGCTACTGGTGATGTTCACATTGATGATCATCACACTAATGAAGATATAGCTCTTGCCATTG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattattcaattgagataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACATGGGCTGTTCGATGTACACGTAAAGGCTACAGGTGATGTACATATTGATGATCATCACACAAATGAAGACGTTCCCTTGCTATTGG
aactaaa putative branch site (score: 2)
tttttc putative PPT
ataatagttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttgtatcttgaaaacttaacattaaaggttactaaggatataaaattattcaattgagataatagttatggaaactaaacttggttgtgatttttcagCAACTTGCTTCACATGGGCTGTTCGATGTACACGTAAAGGCTACAGGTGATGTACATATTGATGATCATCACACAAATGAAGACGTTCCCTTGCTATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaaac