Sequence
atgc intronic sequence ATGC exonic sequencegtaatattatagcctcttctgttgcatttttcatattattctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
Basic information
species | Glycine max |
transcript | GLYMA15G07760.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g58090.1 (Oryza sativa), 3'ss of exon 9
gtaatattata---gcctcttctgttgcatttttcatatta-ttctgttcctggcctttttaccccattaaat-atgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
||| | || | | || || || | || || | | | | | | | || | || | |||| ||||||||||||||||| || || |||||||| |||||||| ||||| || |||||||| || || ||||| |||||||| || || | ||||| | |||||
gtatttttctgaagaacaatttccatgtatccggtgttctagttgagaagttctctatgtcaactgataacattaaattttggcagAGATATGGTCCTCCGCCCTCTTATCCTCAGCTGAAGATTCCTGGGCTAAATGCTCCGATTCCTCCTGGTGCTAGCTTCGGATACCGACCTGGGGAATGGG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G121354_T01 (Zea mays), 3'ss of exon 5
----------gtaatattatagcctcttctgttgcatttttcatattattctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
||| | | | || | | ||| | || || | || ||||| ||| || | ||| | |||||| | |||||||| || ||||| ||||| || ||||||||||| || || ||||| |||||||||||||| || || ||||||||| || || | ||||
gtttgttcatttaacctgaattcagctcttctcctattgataatgcctttgt-ttactggctaacttaattcaatt--tataatgtttcagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTTAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGAGAGTGGG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 8
--------gtaatattatagcctcttctgttgcatttttcatattat-tctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
| || | || |||| | || ||| | |||||| |||| || || | || | || ||| | |||||||| || ||||| ||||| || ||||||||||| || || ||||| |||||||||||||| || || ||||||||| || || | ||||
gtttgttcttttaatctgaatttcagatgttctcctattgataatgcctctgttactggataacttggatcaatg--tacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatattatagcctcttctgttgcatttttcatattattctgttcctggcctttttaccc-cattaaatatgtttttt--cagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
|| | || || || ||| ||||||||| | | || | | || ||| | || ||| |||||||||||||| || || || || || |||||||| || ||||| |||||||||| || || ||||||||||||||||| |||| |||| || ||||
-------gtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
gtaatatta--tagcctcttctgttgcatttt-----tcatattattctgttcctggcctttttaccccattaaatatgt-tttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
|| | || | || ||| | ||||| | | | | | | | | |||| | | | | | ||||||||||||||||||| |||||||||||||| |||||||| |||||||| ||||||||||| || || ||||| |||||||||||||||||||||||||| ||||
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S98_7V6.1 (Physcomitrella patens), 3'ss of exon 9
-------------------------------------------------------------------------------------------gtaat-attatagcctcttctg----ttgcatttttcatattattctgttcctggcctt--tttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
|| || | | || || ||||| || |||||||| |||||| || | || | || | | ||| | ||||||||||| ||||| || || ||||||||||| ||||| |||||| ||||||| ||||| || || || ||||| |||||| |||| || ||||
gtgcgtgcagttgctctccactcttgtgaagttagggagtaaatctttttctttttactcaacattacacgtgtaacctgaactttttactgttatgaatgaagactattctgcaaattttgtttttcatgcc--tctgttagtgcctttggctgactttgtctgcggtttttctgcagAGATATGGGCCTCCTCCTTCTTATCCTCATCTTAAGATTCCTGGATTGAATGCACCAATACCAGAGGGGGCCTCTTTTGGCTATCATGCTGGAGGCTGGG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S505_13V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------------------------------------gtaat-attatagcctcttctgttgcatttttcatattattctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
|| | |||||| | | | | ||| | ||| | | | ||| | | | | || | ||||||||||| ||||| ||||| ||||| || || ||||| |||||| ||||||| ||||| || || ||| ||||| |||||| | || || ||||
gtgcgtggctttgcttaaatttcttgtgctttaaggaagcatgtctgtttcttttgagtcgtcattatatctctaaccttgacgtttgtaatacgtctgaaatgcaaatcttagtttttattcctctgttttactgcagAGATATGGGCCTCCTCCATCTTATCCCCACCTTAAGATTCCTGGATTGAATGCACCAATACCAGAGGGTGCTTCTTTTGGCTATCATGCAGGAGGCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttcatattattctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
tgttttttc CT-rich tract
attaaatatgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatattatagcctcttctgttgcatttttcatattattctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA