Sequence
atgc intronic sequence ATGC exonic sequence...tgtttttattcaatgcaagctttggaaccaaaaaagggaaagaaaatgacctcactgtatttgaatatacttattttatttttctttctttttgtatcagTTATTGTGAGTGCTTTGCTGCTGGTGTCTACTGCATAGAACCCTGCTCCTGTCAGGATTGCTTCAACAAACCTATTCATGAAGACACTGTTCTTCAAACT
Basic information
species | Glycine max |
transcript | GLYMA11G00920.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G00920.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G14770.1 (Arabidopsis thaliana), 3'ss of exon 4
tgtttttattcaatgcaagctttggaaccaaaaaagggaaagaaaatgacct-cactgtatttgaatatacttattttatttttctttctttttgtatcagTTATTGTGAGTGCTTTGCTGCTGGTGTCTACTGCATAGAACCCTGCTCCTGTCAGGATTGCTTCAACAAACCTATTCATGAAGACACTGTTCTTCAAACT
| ||||| | | | | | ||| || | || | | | | | || | | | | | || |||||| ||||| |||||||||||||| ||||| |||||||| || || || ||| || |||||||| |||||||| ||||||||| ||| || |||
--------------gtaagctccaaagttccacatttttgatctttggcccttcaaaaaagtttggtgttttgagtc--ttctgatgtttgtgtggtgcagTTACTGTGAATGCTTTGCTGCTGGAGTCTATTGCATAGAGCCATGTTCATGTATAGACTGCTTCAATAAACCTATCCATGAAGACGTTGTCCTGGCGACT
upper sequence: GLYMA11G00920.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G22780.1 (Arabidopsis thaliana), 3'ss of exon 5
---tgtttttattcaatgcaagct--ttggaaccaaaaaagggaaagaaaatgacctcactgtatttgaata--tacttattttatttttctttctttttgtatcagTTATTGTGAGTGCTTTGCTGCTGGTGTCTACTGCATAGAACCCTGCTCCTGTCAGGATTGCTTCAACAAACCTATTCATGAAGACACTGTTCTTCAAACT
| | || | | | || || || | ||| ||| || | || || | || || ||| | | || | || || |||||| ||||| |||||||||||||| || || |||||||| || || || ||| |||||||||||||||||||| |||||||| |||||| | ||
gtaagctcataccccctagcatctcgttaattcctacctgttcaaaataaaaaactgaattgccttgaagtagttaaccattgtttgactcccttttctttctgcagTTACTGTGAATGCTTTGCTGCTGGGGTTTATTGCATAGAGCCATGTTCATGTATAGATTGCTTCAACAAACCTATCCATGAAGAAACTGTTTTGGCTACC
upper sequence: GLYMA11G00920.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g03880.t01 (Vitis vinifera), 3'ss of exon 6
tgtttttattcaatgcaagctttggaaccaaaaaagggaaagaaaatgacctcactgtatttgaatatacttattttatttttctttctttttgtatcagTTATTGTGAGTGCTTTGCTGCTGGTGTCTACTGCATAGAACCCTGCTCCTGTCAGGATTGCTTCAACAAACCTATTCATGAAGACACTGTTCTTCAAACT
||| ||| | | | || |||| | || | | | || | | ||| | | | |||| | ||| ||| || |||||| ||||| ||||||||||||||||||||||| |||| || || || || || || ||||| |||||||||||||||||||| ||||||||| ||||
tgtctttgaatctttgaggggggcaaaggaaaattagaaatttattttatttccttctgttttgttcttatgatttgaccttttaagcttcttcatgcagTTACTGTGAATGCTTTGCTGCTGGTGTCTACTGTGTAGAGCCATGTTCATGCCAAGAATGCTTTAACAAACCTATTCATGAAGATACTGTTCTTGCAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgacctcactgtatttgaatatacttattttatttttctttctttttgtatcagTTATTGTGAGTGCTTTGCTGCTGGTGTCTACTGCATAGAACCCTGCTCCTGTCAGGATTGCTTCAACAAACCTATTCATGAAGACACTGTTCTTCAAACT
acctcac putative branch site (score: 3)
cttattttatttttct putative PPT
tatttgaatatactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttttattcaatgcaagctttggaaccaaaaaagggaaagaaaatgacctcactgtatttgaatatacttattttatttttctttctttttgtatcagTTATTGTGAGTGCTTTGCTGCTGGTGTCTACTGCATAGAACCCTGCTCCTGTCAGGATTGCTTCAACAAACCTATTCATGAAGACACTGTTCTTCAAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - -tgcaagc
- - - - - - - - - - - - - - -aaaaaag
- - - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - -cctcact