Sequence
atgc intronic sequence ATGC exonic sequencegtattcagctgatataattttattattaatccatgaaatagttggtgcttactgttacttttatgtcttttagGCAATGAGTAGAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATATATAGATTTGTTACAAGCAAAAGTGTTGAGGAAGATATTCTGGAACGTGCTA
Basic information
species | Glycine max |
transcript | GLYMA14G03780.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 3'ss of exon 8
----------------gtattcagctgatataattttattattaat-ccatgaaatagttggt---------gcttactgttacttttatgtc-ttttagGCAATGAGTAGAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATATATAGATTTGTTACAAGCAAAAGTGTTGAGGAAGATATTCTGGAACGTGCTA
| | | |||| ||| ||| | | ||||| |||| | | || || | | ||||| | |||||||||||||| || || || ||||| ||||||||| ||||||||||||| | || || ||| ||||||||||||| || ||||| |||||||||| |
gttcccctctctctctctctctctcatatatgggttttcaatttttgtcttgaaagagtttctcatatttcgggtttttgaatgtgtgatgtcatgctagGCAATGAGTAGGGCACACAGGATTGGGCAACAAGAAACTGTTAACATATATCGTTTCGTGACATGCAAAAGTGTTGAAGAGGATATATTGGAACGTGCAA
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 19
lower sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 20
----------gtattcagctgatataatttt--attattaatccatgaaa-tagttggtgcttactg----ttacttttatgtcttttagGCAATGAGTAGAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATATATAGATTTGTTACAAGCAAAAGTGTTGAGGAAGATATTCTGGAACGTGCTA
|| | | | || ||| ||||||| || | | | || || || | | | | ||| | | | |||| |||||| |||| ||||||||||| |||||||| || || ||||| ||||||||||| || |||||||||||||| ||||| || ||||| || || |
gttttgcctccaataaaatttttctacctttggattattactctttaatactaaatgttgataatggaatcccaaccctat-tatatcagGCCATGAGTCGAGCGCATAGAATTGGGCAACAAGAGGTCGTGAACATTTATAGATTTGTCACTAGCAAAAGTGTTGAAGAAGAAATCCTGGAGCGCGCCA
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 19
gtattcagctgatat-----aattttattat-taatccatgaaatagttggtgcttactgttacttt---tatgtcttttagGCAATGAGTAGAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATATATAGATTTGTTACAAGCAAAAGTGTTGAGGAAGATATTCTGGAACGTGCTA
|| || | ||| | | ||| | || || | | | || || ||| ||| | | | | | |||||||||||||| |||||||||||||| |||| |||||| |||||||| || ||||||||||||||||||||||||||||| |||||||| | || || |
gttttgactggatgtcccttagtttggtcatgtagttggttatatttttctcaattatacttattatagctttatgcactagGCAATGAGTAGGGCTCATAGAATTGGGCAACGAGAAGTAGTTAACATCTACCGATTTGTTACAAGCAAAAGTGTTGAGGAAAATATTCTGAAGCGAGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttattattaatccatgaaatagttggtgcttactgttacttttatgtcttttagGCAATGAGTAGAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATATATAGATTTGTTACAAGCAAAAGTGTTGAGGAAGATATTCTGGAACGTGCTA
tgcttac putative branch site (score: 2)
cttttatgtctttt putative PPT
ttttatgtctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcagctgatataattttattattaatccatgaaatagttggtgcttactgttacttttatgtcttttagGCAATGAGTAGAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATATATAGATTTGTTACAAGCAAAAGTGTTGAGGAAGATATTCTGGAACGTGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA