Sequence
atgc intronic sequence ATGC exonic sequencegtatatcttgatacatgtttgaaatttcttaattatttcactggaaaatggtttgattctgtgaatgactaccataatgaaatgttagttgttgcttaatgtcagtttagataattctcttgtaacttcggctgcattggttactgactgacttttgggatattttgcagGTTCTGCAATTGACAAAATTTGACTATAGACTTGCGAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCTTTGAGATTTA
Basic information
species | Glycine max |
transcript | GLYMA05G04720.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G04720.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G16650.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatatcttgatacatgtttgaaatttcttaattatttcactggaaaat-ggtttgattctgtgaatgactaccataatgaaatgttagttgttgcttaatgtcagtttagataattctcttgtaacttcggctgcattggttactgactgacttttgggatattttgcagGTTCTGCAATTGACAAAATTTGACTATAGACTTGCGAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCTTTGAGATTTA
| ||| |||| | ||| ||| || || | | || || ||| ||| ||| | || || || ||||| | || | | | | | || | || | ||| | | ||||||||| | ||||||||||| |||||||| ||||| || ||| |||| ||||| || ||||||| || || ||| | || || ||||||||||| ||||| |
--------------------------gtaagactatgtcacctaagaatcaaattgttttagttact--ttatca-aatagaatcataggtattactattcatc--tttag-------ttttatcatctta-------tagctaattcatgtttgttgaaa--tcttgcagGTTTTACAATTGACAAAGTTTGACTACAGACTAGCAAATGATCTAGATGAAGACATGCAAAAGTTGCGCTGCAGGGTCAACTATCATGCTTTAAGATTCA
upper sequence: GLYMA05G04720.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
gtatatcttgatacatgtttgaaatttcttaattatttcactggaaaatggtttgattctgtgaat-gactaccataatgaaatgttagttgttgcttaatgtcagtttagataattctcttgtaacttcggctgcattggttactgactgacttttgggatattttgcagGTTCTGCAATTGACAAAATTTGACTATAGACTTGCGAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCTTTGAGATTTA
||| | | | | || | | || | | ||| | | ||| | | ||| || || | | || || | | | || | | |||||||||||| | || |||||||| ||||| || || ||||| ||||| ||||||| ||||||||||| || |||||||| || |||||||||||||| ||||| |
----------------------------------------------------------atgtaacttggttttcaagctagagtgatg-----tatttattttttattttg-----taccttccaa-tttgttttcaatga--ggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcttgtaacttcggctgcattggttactgactgacttttgggatattttgcagGTTCTGCAATTGACAAAATTTGACTATAGACTTGCGAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCTTTGAGATTTA
atatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatcttgatacatgtttgaaatttcttaattatttcactggaaaatggtttgattctgtgaatgactaccataatgaaatgttagttgttgcttaatgtcagtttagataattctcttgtaacttcggctgcattggttactgactgacttttgggatattttgcagGTTCTGCAATTGACAAAATTTGACTATAGACTTGCGAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCTTTGAGATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC