Sequence
atgc intronic sequence ATGC exonic sequencegtatatagttatcatgatactgcattatttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGGACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACTATGCTCAAGATCACATCTTTGGACTTGTTCTGCTGAATGACTGGAGTG
Basic information
species | Glycine max |
transcript | GLYMA03G20850.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G20850.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g10310.3 (Oryza sativa), 3'ss of exon 5
----------------------------------------------------------------------------------------------------------gtatatagtt--atcatg-atactgcattatttttcttttgtttcaatttagattaaat-tattaaaa-----tcatagtttatt---tgcagGCTACTAATGTTGGACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACTATGCTCAAGATCACATCTTTGGACTTGTTCTGCTGAATGACTGGAGTG
||||| | | | | || | |||| | |||| || | ||| |||| ||| | || | | | || || | ||||| | | ||||||||| || |||||||||||||||||| | |||||||| ||||| |||| || |||||||| || | | ||||||| |||||||
gttagtttcttacaaacctcttgactcacagtatttggtattcttgaactgttattgacatacctgttgcatgtttgttaaatttgagctgttggttgtcattgtggtataaaatctggccgtatgtaattagttatagatattttcatttcccctggatcaaatatatcataacgctttgttggcttgttgctttcagGCAGCCATTGTTGGACCAGGGAATGAATTGGGAAAACCTATCGATATTAATGATGCTGAAGAACATATCTTTGGCCTAATGATAATGAATGATTGGAGTG
upper sequence: GLYMA03G20850.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------------gtatatagttatcatgatactgcattatttttcttttgtttcaatttagattaaatt-attaaaatcatagtttatttg-------cagGCTACTAATGTTGGACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACTATGCTCAAGATCACATCTTTGGACTTGTTCTGCTGAATGACTGGAGTG
| ||| ||||| | | | || | | ||| | | |||| ||| |||| || | |||||| |||||| ||| ||||| || || |||||||| ||||| ||||||||| |||| | ||| ||||||||||||||||||||| | |||||||||||||||
gttagttgatatgcatttttatcctatttaagaattttaaactcatgattaattttagtatcaaattttgtcttatgatgaatttatcgttattgcaccagttgtcttgttgtgatatgtgttgtctctgattctatttgttaattatatggcttatttattgcacccagGCTGCTATAGTTGGTCCTGGTAATGAATTAGGAAAGCCTGTGGATGTTAATGAGGCTGCAGATCACATCTTTGGACTTGTGATCATGAATGACTGGAGTG
upper sequence: GLYMA03G20850.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0187g00340.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------------------------------------------------gtatatagttatcatgatactgcattatttttcttttgtttcaatttagattaaatt-attaaaatcatagtttatttg-------cagGCTACTAATGTTGGACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACTATGCTCAAGATCACATCTTTGGACTTGTTCTGCTGAATGACTGGAGTG
| ||| |||| | | | | | | ||| | | |||| ||| |||| || | |||||| |||||| ||| ||||| || || |||||||| ||||| ||||||||| |||| | ||| |||||| |||||||||||||| | |||||||||||||||
gttagttgatatgcatttttatcctatttaagaattttaaactcatgattaattttagtatcaaattttgtcttatgatgaatttatcgttactgcaccagttgtcttgtcgtgatatgtgttgtctctgattctatttgttaattatatggcttatttattgcacccagGCTGCTATAGTTGGTCCTGGTAATGAATTAGGAAAGCCTGTGGATGTTAATGAGGCTGCAGATCATATCTTTGGACTTGTGATCATGAATGACTGGAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGGACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACTATGCTCAAGATCACATCTTTGGACTTGTTCTGCTGAATGACTGGAGTG
tttattt CT-rich tract
tttcaatttagattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatagttatcatgatactgcattatttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGGACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACTATGCTCAAGATCACATCTTTGGACTTGTTCTGCTGAATGACTGGAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA