Sequence
atgc intronic sequence ATGC exonic sequence...ataagaccttagttcttgggagtgagctacatgcatacacaagcatgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
Basic information
species | Glycine max |
transcript | GLYMA12G07000.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07000.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g05830.1 (Oryza sativa), 3'ss of exon 10
ataagaccttagttcttgggagtgagctacatgcatacac----aagcatgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
|| | ||| | | || | || | || | | || | | | | || ||| | || || |||| | ||||||| || || || || ||||| | || || ||||||| || | || ||||||||||| |||||||||||||| |||||||| | | ||||| |
--ttgatccattttcacagagggttgccatgactattctatttgaaattaatgtgaatacttgttgagttat-ataataattttgac-ttatgtcgcgctacagGTTGGCCGATATCCAAGGCATGTGATAAGCCTGTTCTTTCGGCTTCTCTATCCGTGGTACTGGCCTTCCTCTTGCTGGAACTTTATTATGACTTGCGTCA
upper sequence: GLYMA12G07000.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G871336_T01 (Zea mays), 3'ss of exon 10
------ataagaccttagttcttgggagtgagctacatgcatacacaagcatgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
| || || || || ||| | | | ||| | | | | | || | | ||| ||| | | ||||| | || ||||||||| |||| | || || |||||||| || |||| ||||||||||| |||||||||||||| |||||||||||| | | ||
ttgctccacatactttgtttattcatccaccgctgtaatctggtaaaagggtaacacgatgcc-tctctcggttggtcattgggttgttggttggc-----tacagATCGGTCGTTACCCGAGGCACGTGATCAGCCTGTTCTTCCGGCTGCTGTATCCGTGGTACTGGCCTTCCTCTTGCTGGAACTTCGTGATGACCTGTGCCA
upper sequence: GLYMA12G07000.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G59960.1 (Arabidopsis thaliana), 3'ss of exon 10
ataagaccttagttcttgggagtgagctacatg-catacacaagcatgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
| || | ||||| | ||| | | || || | | || ||| ||| | | || | || | | | | | ||||| || ||||||||| ||||||| |||||| | || |||||| |||| ||||||||||| ||||| ||||| || |||||||| |||||||||||||||
aacaggctcaagttcgctcgtttgatgtctttaacacttgcatatagatcacattat-ggataggcttggcttgtaacattgtgatgctcttgtcttgcagGTTGGGCGTTACCCGAGGCATCTCATTAGTCTATTTTTCAGGCTGCTATATCCGTGGTACTGGCCATCCTCATGCTGGAACTTTGTGGTTTCTTGCATTA
upper sequence: GLYMA12G07000.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv06s0004g04350.t01 (Vitis vinifera), 3'ss of exon 10
--ataagaccttagttcttgggagtgagctacatgcatacacaagcatgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
| | | || | | ||| | | || || | | || | | | | || | | | || || | | | |||| || ||||| ||||| || || || ||||| ||||| | |||||| | ||||| ||||| ||||| |||||||| ||||||||||||||| | | ||||||||
ctttcatgcttttaatatctggact--gttaaatctaacctcattccatcttttttctaatgtttacgggggatttgtggtgactttgatactggaatgcagGTTGGACGGTATCCTCGACATCTCATTAGCCTATTCTTCCGATTGCTATATCCATGGTACTGGCCTTCGTCTTGTTGGAACTTCATAATGTCTTGCATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
tattatataaataatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataagaccttagttcttgggagtgagctacatgcatacacaagcatgttccactattatataaataatgatagtgatgttattgttatacaatgatacagGTGGGACGTTACCCGCGGCATCTTATTAGTTTGTTCTTCAGGTTGCTTTATCCGTGGTATTGGCCTTCCTCTTGTTGGAACTTCGTGGTTTCTTGCATTC
- - - - - - - - -gggagtg
- - - - - - - - - - - - agctaca
- - - - - - - - - - - - - - - - -catacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatagtg