Sequence
atgc intronic sequence ATGC exonic sequence...tgataagatttttgttattgtaataattgctccaaaaaccatataacaattactttctttttatgcaatctgatgttatggtttgatttgataactgcagCTAAGAACACTGAAGGGTGGACACCAAGCACGAGTGGGTTCACTGTCTTGGAACAATCATATCCTCACAACAGGAGGGATGGATGGTAGGATTGTTAACA
Basic information
species | Glycine max |
transcript | GLYMA03G36300.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G36300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G33260.2 (Arabidopsis thaliana), 3'ss of exon 3
tgataagatttttgttattgtaataattgctccaaaaaccatataacaattactttctttttatgcaatctgatgttatggtttgatttgataactgcagCTAAGAACACTGAAGGGTGGACACCAAGCACGAGTGGGTTCACTGTCTTGGAACAATCATATCCTCACAACAGGAGGGATGGATGGTAGGATTGTTAACA
|| ||| | | ||| | | | || | | | | | | |||||||| | | |||| |||||||| |||||| | |||||||| ||||| || |||| || |||||| | ||||||||||||||||| || || ||||| |||||||| ||| | ||||
-------------gtaattactactctctctctttta--tgttgagatataatatccggtgttcttagtctgatgtgtttctcatattt-----ctgcagCTGAGAACATTAAAGGGTGGTCACCAGTCAAGAGTAGGATCACTGGCATGGAACAATCATATCCTTACTACTGGAGGAATGGATGGACTGATCATCAACA
upper sequence: GLYMA03G36300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G33270.1 (Arabidopsis thaliana), 3'ss of exon 3
tgataagatttttgttattgtaataattgctccaaaaaccatataacaattactttctttttatgcaatctgatgttatggtttgatttgataactgcagCTAAGAACACTGAAGGGTGGACACCAAGCACGAGTGGGTTCACTGTCTTGGAACAATCATATCCTCACAACAGGAGGGATGGATGGTAGGATTGTTAACA
|| ||| | | ||| | | | || | | | | | | ||| |||| |||| || ||| ||||||| |||||| |||||||||| ||||| ||||||| || |||||| | ||||||||||| ||||| || || ||||| |||||||| ||| | ||||
-------------gtaattactactctctctctttta--tgttgagatataatatccggtgttcttagtctcatgt----gttttatcatatacttgcagCTGAGAACATTGAAGGGTGGTCACCAGTCACGAGTAGGATCACTGGCATGGAACAATCACATCCTTACTACTGGAGGAATGGATGGACTGATCATCAACA
upper sequence: GLYMA03G36300.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0107g00320.t01 (Vitis vinifera), 3'ss of exon 3
----------------tgataagatttttgttattgtaataattgctccaaaaaccatataacaattactttctttttatgcaatctgatgttatggtttgatttgataactgcagCTAAGAACACTGAAGGGTGGACACCAAGCACGAGTGGGTTCACTGTCTTGGAACAATCATATCCTCACAACAGGAGGGATGGATGGTAGGATTGTTAACA
||| || |||| || | | || || | | | || | | || | | || || | | || |||||||| ||||| ||||| ||||| ||| | || | ||||| || ||| ||||||||||||| |||| ||||| ||||| |||||||||| || | || |
gtatgaatttcaactttgaattgaactttga-atcttcgttgttcttctggtttttcccctgtttctgatgaccttctgtatgatttcttatttcttggtgttctcatttctgcagCTGAGAACTCTGAAAGGTGGCCACGCATCAAGGGTGGGCTCCCTGGCTTGGAACAATCACGTCCTTACAACTGGAGGAATGGATGGTAAAATCATAAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaattactttctttttatgcaatctgatgttatggtttgatttgataactgcagCTAAGAACACTGAAGGGTGGACACCAAGCACGAGTGGGTTCACTGTCTTGGAACAATCATATCCTCACAACAGGAGGGATGGATGGTAGGATTGTTAACA
tgataac putative branch site (score: 2)
tactttctttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgataagatttttgttattgtaataattgctccaaaaaccatataacaattactttctttttatgcaatctgatgttatggtttgatttgataactgcagCTAAGAACACTGAAGGGTGGACACCAAGCACGAGTGGGTTCACTGTCTTGGAACAATCATATCCTCACAACAGGAGGGATGGATGGTAGGATTGTTAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - -ctccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatttg