Sequence
atgc intronic sequence ATGC exonic sequence...ttttaaatgtttagtaatgatatcttagtatttacctgctattttctacttgcttttcagtataaaatactaattcccttgtccaaaatttgacatgcagGTCCTTCTAAGAATGCTTCCAGACTATCATCATCATGTGAAGTCATATGAAAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTAAACCTTCAA
Basic information
species | Glycine max |
transcript | GLYMA03G34340.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G34340.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G09920.1 (Arabidopsis thaliana), 3'ss of exon 3
----------ttttaaatgtttagtaatgatatcttagtatttacctgcta-ttttctacttgcttttcagtataaaatactaattcccttgtcca----------aaatttgacatgcagGTCCTTCTAAGAATGCTTCCAGACTATCATCATCATGTGAAGTCATATGAAAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTAAACCTTCAA
||| || | | | | | || ||| | | || |||||| | || ||| | || | | | | | || ||| | |||| || |||| ||||| || ||||||||||| || ||||||||||||||| ||||||| || || || || || ||||| ||||| || ||||| || ||||| ||||
gtttgtgactacttacatatccaccatctctgttttcacattatcttcttagttttctccatgtcttt--gcgtagactctttgtccgtctgcccattgagcttccagatttactgtgtagGTTCTTCTGAGGATGCTTCCAGATTACCATCATCATGTGAAGACATATGAGAACACCCTCATTACTAAATTCTTTGGCCTTCACAGAATCAAACCATCAA
upper sequence: GLYMA03G34340.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g04700.t01 (Vitis vinifera), 3'ss of exon 3
ttttaaatgtttagtaatgatatcttagtatttacctgctattttctacttgcttttcagtataaaatactaattcccttgtc--caaaatttgacat--gcagGTCCTTCTAAGAATGCTTCCAGACTATCATCATCATGTGAAGTCATATGAAAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTAAACCTTCAA
|||| | | | | | | || | |||| | || | || | ||| ||| || || || | ||| || ||| | || || | |||| ||| | ||||||||||| ||||||||||||||||| ||| |||| || ||||| || ||||||||||||||||| |||||||| ||||||||||
-tttactaga--actgaagtttatctaatttttatttcct-tcttttcctttttttgggttaaaagattgaagttctctagtcatcgaagttgtgtttttatagGTTCTTTTGCGAATGCTTCCAAACTATCATCATCATGTGCGGTCCCATGAGAACACACTCATAACAAAATTTTTTGGTCTTCACAGGATCAAACCTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctacttgcttttcagtataaaatactaattcccttgtccaaaatttgacatgcagGTCCTTCTAAGAATGCTTCCAGACTATCATCATCATGTGAAGTCATATGAAAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTAAACCTTCAA
ttttcagtataaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttaaatgtttagtaatgatatcttagtatttacctgctattttctacttgcttttcagtataaaatactaattcccttgtccaaaatttgacatgcagGTCCTTCTAAGAATGCTTCCAGACTATCATCATCATGTGAAGTCATATGAAAATACACTTATCACAAAATTTTTTGGTCTGCACAGGATTAAACCTTCAA
- - - - - - - - - - - - - - - - tacctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaaat