Sequence
atgc intronic sequence ATGC exonic sequence...ctgaaatttcaattatataacaatgagtttaaacacttatattaaatatattgtaaaaggctttaattttttcttgttttcaaaatgttcttaactttagGGACACCTTATAAAGAACCCTAGCACACAAAGGGCTAAAAGTTTGCTTGAAATACCAAGTGCTCATTGCATTATCATTAGCGGCACACCTTTGCAAAATA
Basic information
species | Glycine max |
transcript | GLYMA05G32740.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G32740.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G63950.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------------------------------------ctgaaatttcaattatataacaatgagt-ttaaacacttatattaaatatattgtaaaaggctttaattttttct-------tgttttcaaaatgttctt--------aactttagGGACACCTTATAAAGAACCCTAGCACACAAAGGGCTAAAAGTTTGCTTGAAATACCAAGTGCTCATTGCATTATCATTAGCGGCACACCTTTGCAAAATA
|| || ||| | | || | || | || | || | | || | | | |||||| | | | ||||||| || | | |||||||| ||||| |||||||| | |||||||||||| || ||||||||||| || |||||| |||| | ||||| || || || ||||| | || || |
gtaaacacatcaatattttatcatttgtgaggtctttgcactaatagttggtatagtgtgtatgcactattgtccatcaagcgctgagatgttaccattagtgtaggttctgaattttccccctactgatatcaataaaatgtatttccgcttacacttctagGGACATCTTATTAAGAACCCCAACACACAAAGGGCGAAGAGTTTGCTTGAGATCCCAAGTTCTCACCGTATTATAATAAGTGGTACACCAATCCAGAACA
upper sequence: GLYMA05G32740.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0044g01680.t01 (Vitis vinifera), 3'ss of exon 5
ctgaaatttcaatt-atataacaatgagtttaa---acacttatattaaa-tatattgtaaaaggctttaattttttcttgttttcaaaatgttcttaactttagGGACACCTTATAAAGAACCCTAGCACACAAAGGGCTAAAAGTTTGCTTGAAATACCAAGTGCTCATTGCATTATCATTAGCGGCACACCTTTGCAAAATA
| ||||| || ||| || | | || | || || ||| | |||| | || |||| ||||| | ||| | | || ||| | |||||||| || |||||||| || || ||||||||||||||||||||| | |||||||| |||||||| | ||| | |||| |||||||| | ||||| |
---cattttcattttatacaaaatcttgctttacttgtacataagggaaactttattttgtaaatatttactttttaatccattt--atctatttttatttgtagGGACATCTCATAAAGAATCCCAGTACACAAAGGGCTAAAAGTTTGATGGAAATACCTTGTGCTCATCGTATTGTTGTTAGTGGCACACCAATACAAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatattgtaaaaggctttaattttttcttgttttcaaaatgttcttaactttagGGACACCTTATAAAGAACCCTAGCACACAAAGGGCTAAAAGTTTGCTTGAAATACCAAGTGCTCATTGCATTATCATTAGCGGCACACCTTTGCAAAATA
tcttaac putative branch site (score: 2)
tgttctt CT-rich tract
tttaattttttcttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgaaatttcaattatataacaatgagtttaaacacttatattaaatatattgtaaaaggctttaattttttcttgttttcaaaatgttcttaactttagGGACACCTTATAAAGAACCCTAGCACACAAAGGGCTAAAAGTTTGCTTGAAATACCAAGTGCTCATTGCATTATCATTAGCGGCACACCTTTGCAAAATA
- - - - - - - - - - caatgag