Sequence
atgc intronic sequence ATGC exonic sequencegtatatatttatcatgatactgcattacttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGAACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTCTGCTCAATGACTGGAGTG
Basic information
species | Glycine max |
transcript | GLYMA12G15210.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G15210.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g10310.3 (Oryza sativa), 3'ss of exon 5
-------------------------------------------------------------------------------------------------------------------------gtatatatttatcatgatactgcattacttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGAACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTCTGCTCAATGACTGGAGTG
|||| || ||| | ||| || | |||| || |||| | | || | | | | || || ||||| | | ||||| ||| || |||||||||||||||||| | |||||||| |||||||||| || |||||||| || | | | ||||| |||||||
gttagtttcttacaaacctcttgactcacagtatttggtattcttgaactgttattgacatacctgttgcatgtttgttaaatttgagctgttggttgtcattgtggtataaaatctggccgtatgtaatta--gttatagatattttcatttcccctggatcaaat-atatcataacgctttgttggcttgttgctttcagGCAGCCATTGTTGGACCAGGGAATGAATTGGGAAAACCTATCGATATTAATGATGCTGAAGAACATATCTTTGGCCTAATGATAATGAATGATTGGAGTG
upper sequence: GLYMA12G15210.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------gtatatatttatcatgatactgcattacttttctttt--------gtttcaatttagattaaatt-attaaaatcatagtttatttg-------cagGCTACTAATGTTGAACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTCTGCTCAATGACTGGAGTG
|| ||||||| | || |||| | || |||| | || | | |||| ||| |||| || | |||||| |||||| ||| |||| || || |||||||| ||||| ||||||||| |||| | |||| ||||||||||||||||||||| | | |||||||||||||
gttagttgatatgcatttttatcctatttaagaattttaaactcatgattaattttagtatcaaattttgtcttatgatgaatttatcgt--tattgcaccagttgtcttgttgtgatatgtgttgtctctgattctatttgttaattatatggcttatttattgcacccagGCTGCTATAGTTGGTCCTGGTAATGAATTAGGAAAGCCTGTGGATGTTAATGAGGCTGCAGATCACATCTTTGGACTTGTGATCATGAATGACTGGAGTG
upper sequence: GLYMA12G15210.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0187g00340.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------------------------------------------gtatatatttatcatgatactgcattacttttctttt--------gtttcaatttagattaaatt-attaaaatcatagtttatttg-------cagGCTACTAATGTTGAACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTCTGCTCAATGACTGGAGTG
|| ||||||| | ||||||| | || |||| | || | | |||| ||| |||| || | |||||| |||||| ||| |||| || || |||||||| ||||| ||||||||| |||| | |||| |||||| |||||||||||||| | | |||||||||||||
gttagttgatatgcatttttatcctatttaagaattttaaactcatgattaattttagtatcaaattttgtcttatgatgaatttatcgt--tactgcaccagttgtcttgtcgtgatatgtgttgtctctgattctatttgttaattatatggcttatttattgcacccagGCTGCTATAGTTGGTCCTGGTAATGAATTAGGAAAGCCTGTGGATGTTAATGAGGCTGCAGATCATATCTTTGGACTTGTGATCATGAATGACTGGAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGAACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTCTGCTCAATGACTGGAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatatttatcatgatactgcattacttttcttttgtttcaatttagattaaattattaaaatcatagtttatttgcagGCTACTAATGTTGAACCGGGAAATGAATTGGGAAAACCTGTGGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTCTGCTCAATGACTGGAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA