Sequence
atgc intronic sequence ATGC exonic sequence...cattcatgattaaagcatgttccctagagcccattttgttgaaaaatttgctagtttatgattcatattttttaactgtaatattcctttttcctcccagTTCATTGGTTGGCCTCTTTTTCCCTGCTGTGACGGGAATAATGGCAGGTTCTAATCGATCATCCTCTCTGAGAGATACTCAGCAATCAATTCCTGTTGGA
Basic information
species | Glycine max |
transcript | GLYMA15G22520.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G30450.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------cattcatgattaaagcatgttccctagagccc-attttgttgaaaaatttgctagtttatgattcatattttttaactg---taatattccttt---ttcctcccagTTCATTGGTTGGCCTCTTTTTCCCTGCTGTGACGGGAATAATGGCAGGTTCTAATCGATCATCCTCTCTGAGAGATACTCAGCAATCAATTCCTGTTGGA
| ||||| || | | || | | || |||| | || | | || || | | || | || ||| ||| || | |||| |||| || || ||||| |||||||| || ||||| ||||| ||||| ||||||||| | || || | |||||| || ||||||||||||||||
gtgagtaacttccagaaattgtgttgctgatgatagaaaaactctagttatggttttaagttaacgaaataattttatctgttcagtttttactctcaaatttatttaccgttcttttcggttgttttcagTGAGCTGGTGGGTCTATTTTTTCCTGCTGTAACAGGAATTATGGCTGGTTCAAATCGATCAGCTTCACTTAAAGATACACAAAAATCAATTCCTGTTGGT
upper sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 9
cattcatgattaaagcatgttccctagagcccattttgttgaaaaatttgctagtttatgattcatattttttaactgtaatattcctttttcctcccagTTCATTGGTTGGCCTCTTTTTCCCTGCTGTGACGGGAATAATGGCAGGTTCTAATCGATCATCCTCTCTGAGAGATACTCAGCAATCAATTCCTGTTGGA
| ||||| | || || | || | | | |||| | || | | |||| ||||| | || | | | | |||| || |||| || || |||||||||||||| |||||||| ||||||||||| ||||| || | || ||||||| ||||| | |||||||||||||||
gaactatgatgcatgccaacctattacattacaaatgggtttgaaatggagttaattttcttaatggttttctaactatcctacttttcactattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgctagtttatgattcatattttttaactgtaatattcctttttcctcccagTTCATTGGTTGGCCTCTTTTTCCCTGCTGTGACGGGAATAATGGCAGGTTCTAATCGATCATCCTCTCTGAGAGATACTCAGCAATCAATTCCTGTTGGA
ttttaac putative branch site (score: 2)
tattcctttttcctcc putative PPT
tagtttatgattcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattcatgattaaagcatgttccctagagcccattttgttgaaaaatttgctagtttatgattcatattttttaactgtaatattcctttttcctcccagTTCATTGGTTGGCCTCTTTTTCCCTGCTGTGACGGGAATAATGGCAGGTTCTAATCGATCATCCTCTCTGAGAGATACTCAGCAATCAATTCCTGTTGGA
cattcat
- - - - - - - gcatgtt
- - - - - - - - - - - - - -agcccat
- - - - - - - - - - - - - - - - - - tgttgaa
- - - - - - - - - - - - - - - - - - - - - - - -ttgctag