Sequence
atgc intronic sequence ATGC exonic sequence...taaatgcttgaagttagaatttgggaaatcttttaaagatgatatactatcgttttagttttaacatgccatttgttcctggtttatttttgggatgcagGTTGTTCATTTTAAAGGATCAAGAAAACGTCTAATGCTCGAATCTTGGAACTTTTATTCCTCATCTCTTGAGGTTTCAGACATGTTATGTCTCATTTTGG
Basic information
species | Glycine max |
transcript | GLYMA06G42210.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G42210.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G45320.1 (Arabidopsis thaliana), 3'ss of exon 5
taaatgcttgaagttagaatttgggaaatcttttaaagatgatatactatcgttttagttttaacatgccatttgttcctggtttatttttgggatgcagGTTGTTCATTTTAAAGGATCAAGAAAACGTCTAATGCTCGAATCTTGGAACTTTTATTCCTCATCTCTTGAGGTTTCAGACATGTTATGTCTCATTTTGG
| | |||| | || || | | || ||| | || || | || ||||| ||||||| || |||||||||||||||||| |||||||||| | |||||||| || || || | || |||| ||||| ||||| || | |
---------------------------gtactctaaatccctaaaaccataa----accctcaaagcatcatcagagtctcattactcgtttttttgcagATTGTTCACTTCAAAGGATCAAGAAAACGTTTAATGCTCGAGGCATGGAACTTCTACAAATCTACTTCAAACATTCCAGATATGTTGTGTCTTGTTCTAG
upper sequence: GLYMA06G42210.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g00310.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------------------------------taaatgcttgaagttagaatttggg----aaatcttttaaagatgatatactatcgttttagttttaacatgcc--atttgttcctgg-tttatttttgggatgcagGTTGTTCATTTTAAAGGATCAAGAAAACGTCTAATGCTCGAATCTTGGAACTTTTATTCCTCATCTCTTGAGGTTTCAGACATGTTATGTCTCATTTTGG
| | | || ||||| | ||||| || || |||| | ||||| | ||| |||| |||| ||| ||| | |||||||||||||| ||||||||||| ||||| |||||| | || |||||||| || | || ||| ||| ||||||| |||||||| ||||| ||
gtacataatttcttcaaatcattttttcacattgatcttggtcaatagctgagcttgaacatcatctttgggtatcccttgggtttgatccctttttaacat-atatggcaagtttttatgagcatcattttttatttacgtctggctttgtttcctgtgcacagGTTGTTCATTTCAAAGGATCAAGGAAACGCCTAATGTTGGAGTCTTGGAATTTCTTCATTTCCTCTTCTGACATTTCAGATATGTTATGCCTCATCTTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actatcgttttagttttaacatgccatttgttcctggtttatttttgggatgcagGTTGTTCATTTTAAAGGATCAAGAAAACGTCTAATGCTCGAATCTTGGAACTTTTATTCCTCATCTCTTGAGGTTTCAGACATGTTATGTCTCATTTTGG
ttttaac putative branch site (score: 2)
tttattttt putative PPT
ttttagttttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaatgcttgaagttagaatttgggaaatcttttaaagatgatatactatcgttttagttttaacatgccatttgttcctggtttatttttgggatgcagGTTGTTCATTTTAAAGGATCAAGAAAACGTCTAATGCTCGAATCTTGGAACTTTTATTCCTCATCTCTTGAGGTTTCAGACATGTTATGTCTCATTTTGG
- - tgcttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgcca