Sequence
atgc intronic sequence ATGC exonic sequencegtttgagttggctaagttttgttggtgccattagtccatttccttacaagttatgaccaaatgaaatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
Basic information
species | Glycine max |
transcript | GLYMA03G37750.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G37750.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 4
gtttgagttggctaagttttgttggtgccatta--gtccatttccttacaagttatgaccaaatgaaatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
|| | | || | | | ||| |||| | | | || | | |||| | ||| | | ||||||||||||||| ||||||||||||||||||||||||||||| || | || || || || | || || ||||||
------gtagaacgataattacttatttcgttataacttatttattgatgggagatt-ctaggataaatggtcttcttttgtggcaa----gcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
upper sequence: GLYMA03G37750.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 4
gtttgagttggctaagttttgttggtgccattagtccatttcc-ttacaagttatgaccaaatga-aatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
|| | || | ||| | | ||| | | | || ||| | |||||| |||||||| || ||||| |||||||| || |||||||| |||||||| |||||||| ||| |||| | ||||||||||| ||||| |||||||||
gtataagataaataaagctaaac--tatcataaacttgtcagggtcactagt-gcaattaaatgataatattttatct-----ttgttcaaacagATGGGCAAGTTTTATGAACTTTTTGAAATGGATGCGCATATAGGAGCAAAAGAGCTTGATTTGCAATATATGAAG
upper sequence: GLYMA03G37750.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 4
--gtttgagttggctaagttttgttggtgccattagtccatt------tccttacaagttatgaccaaatgaaatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
|| | | || | || ||| || | | || || | | | | |||| || || | | | ||| | || ||||||| ||||| |||||| | ||||| |||||||||||| | |||| ||| ||||| ||||||||||||||||||
atgtccgcagtaaagaaagtactttcgtgtcaagaaatcgttgctagatcttaagatgctatgttcag-tgtattgacagctggatcaattctctctgtagATGGGAAAATTCTATGAGATGTTTGAAATGGATGCACATATCGGTGCGAAGGAGCTGGACTTGCAGTATATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccttacaagttatgaccaaatgaaatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
tccttac putative branch site (score: 2)
tttttcctccctattg putative PPT
aaatgaaatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgagttggctaagttttgttggtgccattagtccatttccttacaagttatgaccaaatgaaatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT