Sequence
atgc intronic sequence ATGC exonic sequence...aaaggccatttagatcttagtatgttacttggttcacatgaatgagttaatgtgaaaccatctctttacctctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACCTGCCTTGTTGCTAAAAGGTTGGGCAGTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTCTACGGCTA
Basic information
species | Glycine max |
transcript | GLYMA18G52720.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G52720.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G04950.1 (Arabidopsis thaliana), 3'ss of exon 8
aaaggccatttagatcttagtatgttacttggttcacatgaatgagttaatgtgaaaccatctctttacctc----tttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACCTGCCTTGTTGCTAAAAGGTTGGGCAGTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTCTACGGCTA
||| |||| | | | | | |||| | ||| | | | || | ||| | || ||| | | ||||| ||||||||||||||||||||||| || |||||||| | | || | | || | ||| || || ||||||||||||||||| ||||| | | |||| |
----tgtattgagattatgtaaaccagccttgggataatgagttggttgtttgagcaatgtttcataaccatgaagctgagtgaactttttcttttggtgccagCTGCACCAGTTGATGCCATCTGTTGTAACATGCCTTGTATCAAGAAAGCTTGGAAATAGATTTGCTGACAACCACTGGGAACTCAGAGATTTTGCGGCAA
upper sequence: GLYMA18G52720.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0059g00300.t01 (Vitis vinifera), 3'ss of exon 7
-aaaggcca-tttagatcttagtatgttacttggttcacatgaatgagttaatgtgaaaccatctctttacc-tctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACCTGCCTTGTTGCTAAAAGGTTGGGCAGTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTCTACGGCTA
| | | | ||| | ||| || | | || ||| | | | || ||| | | | | | | | | | |||||| ||||| || ||||||||||| || |||||||||||||| ||| | | || | ||| | ||||||||||||||||||||| |||||| || || |
gatactctagcttatgtgttaaagtgaca---gacatgtattgatgtcctttttgggaagtgtctaacttctgtacatctaatggggcatctttccttgtcagCTGCACCAATTAATGCCATCTGTGGTTACCTGCCTTGTTGCAAAACGAATTGGAAATAGACTTGCAGACAACCACTGGGAACTTCGAGACTTCACAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaatgtgaaaccatctctttacctctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACCTGCCTTGTTGCTAAAAGGTTGGGCAGTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTCTACGGCTA
agttaat putative branch site (score: 4)
tctctttacctctttt putative PPT
tttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaggccatttagatcttagtatgttacttggttcacatgaatgagttaatgtgaaaccatctctttacctctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACCTGCCTTGTTGCTAAAAGGTTGGGCAGTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTCTACGGCTA
- -ggccatt
- - - - - - - - - - - - - - - - - - catgaat