Sequence
atgc intronic sequence ATGC exonic sequencegtgccatgacatattcttatgatactcaatccttccttcatctctttttaacctttgtttttttttttctttttttccagTTACTTTGGATCATATTGTTGGCATCATGTGCTGCTCTTGTAATTCAATCAATGGCAGCCAATCTTGGGGTGGTCACTG
Basic information
species | Glycine max |
transcript | GLYMA15G00590.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 3
----gtgccatgacatattcttatgatactcaatccttccttcatctctttttaacctttgtt-----tttttttttctttttttccagTTACTTTGGATCATATTGTTGGCATCATGTGCTGCTCTTGTAATTCAATCAATGGCAGCCAATCTTGGGGTGGTCACTG
|| || | | | || | | ||||| || ||| ||| || |||| ||| || ||| || || || |||||||| |||||||||||| ||||||||||||| ||| | || |||||||| |||| || |||||||| || ||||| |
gtgcgttacacaatctgcttttttaaccttcaatgttt--ttcttcttttgttaatttttattgatcgtttcttggtcacattgaacagTTACTCTGGATCATATTGGTGGCATCATGTGCAGCTTTAGTGATTCAATCTCTGGCTGCAAATCTTGGTGTTGTCACAG
upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G80830.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgccatgacatattctta-------tgatactcaatccttcctt-catctctttttaacctttgtttttttttttctttttttccagTTACTTTGGATCATATTGTTGGCATCATGTGCTGCTCTTGTAATTCAATCAATGGCAGCCAATCTTGGGGTGGTCACTG
|||| | | | || | | || || || || ||| | || || || ||| ||| || | | | ||||||||||||||||||||| |||| |||||||| ||| | || |||||||| |||| || |||||||| || ||||| |
gtgcgttcatactctccttccctcgcttttatcttatactagtttgcattttttacaaaatcatgatttctttctt-tgtaataacagTTACTTTGGATCATATTGGTGGCCTCATGTGCGGCTTTGGTGATTCAATCTCTGGCTGCTAATCTTGGTGTTGTCACAG
upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 4
------gtgccatgacatattcttatgatactcaatccttccttcatctctttttaacctttgt-----ttt----tttttt-----tctttttttccagTTACTTTGGATCATATTGTTGGCATCATGTGCTGCTCTTGTAATTCAATCAATGGCAGCCAATCTTGGGGTGGTCACTG
| || | | | ||||| || ||| | | ||| | || | | || |||| | | || | | || | | | |||||||||||||||||||| |||| ||||||||||| || | |||||||| | |||||||| || ||||| || || |
aaactcgctcctcgtaagaagattatgttattcattattaacttaacatcctgtcaatgcttgtagccatctaacattctctggacacctctctgtgcagTTACTTTGGATCATATTAGTGGCCTCATGTGCTGCCCTCATTATTCAATCCTTAGCAGCCAACCTGGGGGTAGTAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatccttccttcatctctttttaacctttgtttttttttttctttttttccagTTACTTTGGATCATATTGTTGGCATCATGTGCTGCTCTTGTAATTCAATCAATGGCAGCCAATCTTGGGGTGGTCACTG
ttttaac putative branch site (score: 2)
tctctttttaaccttt CT-rich tract
tctttttaacctttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgccatgacatattcttatgatactcaatccttccttcatctctttttaacctttgtttttttttttctttttttccagTTACTTTGGATCATATTGTTGGCATCATGTGCTGCTCTTGTAATTCAATCAATGGCAGCCAATCTTGGGGTGGTCACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT