Sequence
atgc intronic sequence ATGC exonic sequence...gcaattttttacggcattggtttgctgttagtttcttactctgatgaagttgcttactgtttttttttttttttgtgtatggtgttgttgtgtgtcgcagATTGATGAAAATGTAAAGAGGGAAATCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGGTTGGTTATGTTTTTCAAATATTTA
Basic information
species | Glycine max |
transcript | GLYMA17G20610.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G20610.3 (Glycine max), 3'ss of exon 1
lower sequence: AT3G50500.1 (Arabidopsis thaliana), 3'ss of exon 1
gcaattttttacggcattggtttgctgttagtttctt---actctgatgaagttgcttactgttttttttttttt--ttgtgtatggtgttgttgt-gtgtcgcagATTGATGAAAATGTAAAGAGGGAAATCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGGTTGGTTATGTTTTTCAAATATTTA
||| | || | || |||||| | | | | || |||| || | ||| | | | | | | | || | || || | |||||||||||||||||| ||||||| || || ||||| || || |||| |||||||| |||||||| |||||||||
------tttaatggtggttacttactgttactatgattaaatgcttttgaaaagttttgatatttctcaataaatgatgatacttttttttatggttgttttgcagATTGATGAAAATGTTCAGAGGGAGATTATCAATCATAGATCATTGAGACATCCTAATATTGTTAGGTTTAAAGAG-------------------------
upper sequence: GLYMA17G20610.3 (Glycine max), 3'ss of exon 1
lower sequence: AT5G66880.1 (Arabidopsis thaliana), 3'ss of exon 1
gcaattttttacggcattggtttgctgttagtttcttactctgatgaagttgcttactgtttttttttttttttgtgtatgg--tgttgttgtgtg--tcgcagATTGATGAAAATGTAAAGAGGGAAATCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGGTTGGTTATGTTTTTCAAATATTTA
| |||||| | |||| || | || | | | ||| ||||| ||| || ||||| ||| ||| | || | | |||||||||||||||||| | ||||| |||||||| |||||||| || ||||||||||| ||||| ||||||||||||
gaaattttg---gatattgaaatgatttttttagttggttttgagtgttctgctt-ttgtagattaggacagttgtgaatgacttgtaactatgggagttgcagATTGATGAAAATGTTCAAAGGGAGATCATTAACCACAGGTCACTAAGGCATCCTAATATTGTCAGATTTAAAGAG-------------------------
upper sequence: GLYMA17G20610.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 1
-----gcaattttttacggcattggtttgc-tgttagtttcttactctgatgaagttgcttactgtttttttttttttttgtgtatggtgttgttgtgtgtcgcagATTGATGAAAATGTAAAGAGGGAAATCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGGTTGGTTATGTTTTTCAAATATTTA
|||||| ||| || | | | || ||| ||| | | ||||| || || | | ||| | | ||| | || || ||| |||||||||||||||||| | |||||||| |||||||| |||||||| ||||| || ||||||||||| |||||||||
tgaagccaatttagataggctatgatatccaccttggttatttaattttatgaatatgttttaaaatgtggatttctcat---tataatattctt---tgttgcagATTGATGAAAATGTTCAAAGGGAAATAATTAATCATAGGTCTCTCAGGCACCCCAACATTGTTAGGTTTAAAGAG------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagttgcttactgtttttttttttttttgtgtatggtgttgttgtgtgtcgcagATTGATGAAAATGTAAAGAGGGAAATCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGGTTGGTTATGTTTTTCAAATATTTA
tgcttac putative branch site (score: 2)
ttactgtttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaattttttacggcattggtttgctgttagtttcttactctgatgaagttgcttactgtttttttttttttttgtgtatggtgttgttgtgtgtcgcagATTGATGAAAATGTAAAGAGGGAAATCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGGTTGGTTATGTTTTTCAAATATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG