Sequence
atgc intronic sequence ATGC exonic sequence...actgatgatggtgcaatgatacgtagtttgttctgtaagatcaatagacaatggttctacttattgattctgaaaatttgataattttatgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
Basic information
species | Glycine max |
transcript | GLYMA09G33330.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G018962_T01 (Zea mays), 3'ss of exon 2
----------actgatgatggtgcaatgatacgtagtttgttctgtaagatcaatagacaatggttctacttattgattctgaaaatttgataattttatgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
||||| | | || | ||| | | | | | || ||||| | || | ||| |||| || | | ||| ||||| || |||||| |||||||| || |||||||| ||||| || || ||||| || ||||| || ||||| || ||||| ||||||||||| |||| ||| |||||
cagaaaaagaactgaagggactaca-tcataaactatatttggtcttagcctaatagcctat--tactaattatattttattattgttttttaattcaat-------cagGACAACTCTTGGCTTTTGGGCTGGCCATCGCAATTCCAAAATAAGGGTTATCCTAGCACGAGTTTGGGAGAATGACACAGAGCTTGCTATCAGCAACAAC
upper sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G000976_T01 (Zea mays), 3'ss of exon 2
actgatgatggtgcaatga-tacgtagtttgttctgtaagatcaatagacaatggttctacttattgattctgaaaatttgataattttatgcttttgc-agGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
| | | || | || | | |||| || || | | ||| ||| | ||| | | | | || |||| || | ||| | |||||| || |||||||| ||||| || || ||||| || ||||| || ||||| || ||||| |||||||||||||||| ||| ||||||
atacacctcagaaaaagaactagagggactacatcgtaaactctatttgctcttagccta-ttactaattat-attttattattgttttgcaattcaaccagGGTAATTCTTGGCTTTTGGGCTGGCCATCGCAATTCCAAAATAAGGGTTATCCTAGCACGAGTTTGGGAGAATGACACAGAACTTGCTATCAGCAACAAT
upper sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G38040.1 (Arabidopsis thaliana), 3'ss of exon 2
actgatgatggtgcaatgatacgtagtttgttctgtaagatcaatagacaatggttctac-ttattgattctgaaaatttgataatttta-----tgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
| | | | | | ||| || | || |||| ||| | || ||| || | ||| | ||| || | || |||||| |||||||| || |||||||||||||| || ||||| || | ||||| ||||| | |||||||||||| |||||||| |||||||||||||||||
------gtaaactaagtcctccctcttttatta-ggaactctggtagatcctggagttgtattgttggctcaatgttactaatactgttaaatggtggtgttacagGACGACTCTTGGTTTTTGGGCTGGTCATCGAAATTCTAAGATACGGGTTATACTTGCTCATGTGTGGGAAAACGACACAGAGCTTGATATTTCAAACAAC
upper sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0218g00090.t01 (Vitis vinifera), 3'ss of exon 3
---actgatgatggtgcaatgatacgta-gtttgttctgta-agatcaatagacaatggttctacttattgattctgaaaatttgataattttatgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
|| | | | ||| || | | || ||| | | ||| | ||| ||| | ||| | | |||||| || || || |||||||||| |||||||| || |||||||||||||||||||| ||||| |||||||| || |||||||| ||||| |||||||| |||||||| ||| |||||
tagcatgtttctcatacaacgaattgaatgtaagttttatgtggatggaaagatcccagttatgag-attattgcctaaaatt-gagaagcatac---tttgcagGACAACTCTTGGCTTTTGGGCTGGTCATCGGAACTCCAAAATTAGAGTTATACTAGCACGTGTATGGGAGAATGACACTGAACTTGACATTATGAACAAC
upper sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 2
actgatgatggtgcaatgata-cgtagtttgttctgtaagatcaatagacaatggt---tctacttattgattctgaaaatttgataattttatgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
| || || | || || | | || | || | ||| || | || | |||||| | | ||| | | | || ||||||||||| ||||| || ||||| || ||||| || || ||||| |||||||| || |||||| | ||||| ||||||||||| |||||||| ||||||
gtttgctatagttttttcttaatttaataaatgcttgcaaattgagttacactgctacctccatggattgatcattgatattaaccagtgta----ttctgcagGACTACACTTGGCTTTTGGGCAGGCCATCGCAATTCAAAAATAAGAGTTATACTAGCACGTATTTGGGAGAATGACACAGAGCTTGATATAAAAAACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agacaatggttctacttattgattctgaaaatttgataattttatgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
tgctttt CT-rich tract
ttattgattctgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actgatgatggtgcaatgatacgtagtttgttctgtaagatcaatagacaatggttctacttattgattctgaaaatttgataattttatgcttttgcagGACTACTCTTGGATTCTGGGCTGGTCATCGGAACTCTAAAATCAGAGTTATTCTTGCACGTGTGTGGGAAAATGACACAGAACTTGATATTTCAAACAAT
- - - gatggtg
- - - - - - - - - - - - - - - ttctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gattctg