Sequence
atgc intronic sequence ATGC exonic sequence...acattataacttcacgtttatctttttaaagcgcatcctttgctttggaggagttaaatttttgttataatagttgtttaaacatttttcttccgtgcagAAATATGGTAGTTTATTTGAGAACAATACCAAGAATGGGAGTTTTTACCTCCAATCCAAAGTTCATCGGGCCAAGGAATGTCTGGAGGCTGTCCATCAAG
Basic information
species | Glycine max |
transcript | GLYMA06G20480.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G20480.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g73020.1 (Oryza sativa), 3'ss of exon 3
---------------------------------------acattataacttcacgtttat-----ctttttaaagcgcat------cctttgctttgg--aggagttaaatttttgttataatagttgtttaaacatttttcttccgtgcagAAATATGGTAGTTTATTTGAGAACAATACCAAGAATGGGAGTTTTTACCTCCAATCCAAAGTTCATCGGGCCAAGGAATGTCTGGAGGCTGTCCATCAAG
|| || || || || || ||||| ||| | |||||| | | || | || || || | ||||| ||| | ||| ||||||||| | || | | ||||||| ||| | ||||||||||| || || ||||| || |||||||||||||| || |||||||| || ||||| |||||
gtttgtgacaatgtgctttcattaacttgatacattccagcaaatcaattttctaccaattaagactgttaaaagcacatggcagtcatttgctctagccagaaactagcattgaatttctgtc-ttgttgaaatacttt--------gcagAAATACGATACTATGTTTGAGAGGAATGCTAAGAATGGGAGCTTCTATCTCCAGTCGAAAGTTCATCGGGCTAAAGAATGTCTAGAAGCTGTATATCAAA
upper sequence: GLYMA06G20480.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G59280.1 (Arabidopsis thaliana), 3'ss of exon 3
acattataacttcacgtttatctttttaaagcgcatcctttgctttggaggagttaaattt--ttgttataatagttgtttaaacatttttcttccgtgcagAAATATGGTAGTTTATTTGAGAACAATACCAAGAATGGGAGTTTTTACCTCCAATCCAAAGTTCATCGGGCCAAGGAATGTCTGGAGGCTGTCCATCAAG
| | | ||| | |||| | | | | || ||| |||| | | ||| | || || || | | || | |||||||||||| | | |||||||| ||| | || ||||| |||||||| ||||| ||||||||||| ||||| |||||||| || | ||| | |
--gtcaacatttctcttttaccaatgacgaatgaatgatttacttttggaactctgaatcgaataactaaaaggactggctttatatatg-----aatgcagAAATATGACAAACTGTTTGAGAATAATGCGAAAGCAGGGAGCTTTTACCTTCAATCTAAAGTTCATCGAGCCAAAGAATGTCTAGAAGTTGTGTACAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggaggagttaaatttttgttataatagttgtttaaacatttttcttccgtgcagAAATATGGTAGTTTATTTGAGAACAATACCAAGAATGGGAGTTTTTACCTCCAATCCAAAGTTCATCGGGCCAAGGAATGTCTGGAGGCTGTCCATCAAG
catttttcttccgt CT-rich tract
ttaaatttttgttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acattataacttcacgtttatctttttaaagcgcatcctttgctttggaggagttaaatttttgttataatagttgtttaaacatttttcttccgtgcagAAATATGGTAGTTTATTTGAGAACAATACCAAGAATGGGAGTTTTTACCTCCAATCCAAAGTTCATCGGGCCAAGGAATGTCTGGAGGCTGTCCATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - acttcac
- - - - - - - - - - - - - - - - - - cctttgc
- - - - - - - - - - - - - - - - - - - - - - - ggaggag